SubtiWiki - User contributions [en]

PGP1871

2015-04-02T13:23:47Z

Dtoedter:

[[File:PGP1871.png|250px|thumb|right|'''pGP1871: click to enlarge''']]

'''General comments'''

Integrative [[plasmid]] for the fusion of YFP tag to the C-terminus of a protein, keeping the control of the expression under its natural promotor
* ''E.coli'': multicopy plasmid, select for ampicillin
* ''B. subtilis'': no ori, select for spectinomycin

'''Hints for the usage'''
* amplify the last 600bp of your gene of interest,
* skip the Stopp-Codon of the gene in the reverse primer
* take care that the integration is in-frame
* do not use the HindIII site for cloning, as GFP is inserted via this restriction site

'''The reference'''
<pubmed> 23475962 </pubmed>
== Return to [[Plasmids]] ==

AccA

2015-04-02T11:47:40Z

Dtoedter: /* Biological materials */

AccB

2015-04-02T11:46:19Z

Dtoedter: /* Biological materials */

AccC

2015-04-02T11:43:59Z

Dtoedter: /* Biological materials */

YqhY

2015-04-02T11:42:15Z

Dtoedter: /* Biological materials */

* '''Description:''' unknown 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''yqhY''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no {{PubMed|24178028}}
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24330 yqhY]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=yqhY yqhY]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 14 kDa, 4.414
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 405 bp, 135 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[nusB]]'', ''[[accC]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24330 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24330 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24330 DNA_with_flanks]
|-
|-
|-
|colspan="2" | '''Genetic context''' [[Image:yqhY_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhY_2529926_2530333_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:yqhY_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24330]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[proteins of unknown function]]}}

= This gene is a member of the following [[regulons]] =

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU24330

===Phenotypes of a mutant ===

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24330&redirect=T BSU24330]

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/accBC-yqhY.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11709]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:''' asp23 family (according to Swiss-Prot)

* '''Paralogous protein(s):''' [[YloU]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''

* '''[[Localization]]:'''

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24330&redirect=T BSU24330]

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P54519 P54519]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24330]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[accB]]-[[accC]]-[[yqhY]]'' {{PubMed|7592499}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhY_2529926_2530333_-1 yqhY] {{PubMed|22383849}}

* '''[[Sigma factor]]:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''
** number of protein molecules per cell (minimal medium with glucose and ammonium): 127 {{PubMed|24696501}}
** number of protein molecules per cell (complex medium with amino acids, without glucose): 893 {{PubMed|24696501}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 4905 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 3644 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 4928 {{PubMed|21395229}}

=Biological materials =
* '''Mutant:'''
** GP1468 (''yqhY''::''erm''), available in [[Jörg Stülke]]'s lab {{PubMed|24178028}}
** GP1765 (''yqhY''::''cat''), available in [[Jörg Stülke]]'s lab {{PubMed|24178028}}
** GP1474 (chromosomal ''yqhY''-Strep fusion, ''aphA''3), purification from ''B. subtilis'', for [[SPINE]], available in [[Jörg Stülke]]'s lab'''

* '''Expression vector:'''
** pGP1322 (N-terminal Strep-tag, purification from ''E. coli'', in [[pGP172]]), available in [[Jörg Stülke]]'s lab
** pGP1325 (N-terminal His-tag, purification from ''E. coli'', in [[pWH844]]), available in [[Jörg Stülke]]'s lab
** pGP1496 (His-tag, purification from ''E. coli'', in pET28a+), available in [[Jörg Stülke]]'s lab
** pGP1498 (N-terminal His-tag, TEV-site, purification from ''E. coli'', in [[pWH844]]), available in [[Jörg Stülke]]'s lab

* '''lacZ fusion:'''

* '''GFP fusion:'''
** GP1471 (spc, based on [[pBP43]]), available in [[Jörg Stülke]]'s lab

* '''YFP fusion:'''
** GP1492 (cat, available in [[Jörg Stülke]]'s lab

* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab

* '''FLAG-tag construct:'''
** GP1481 (spc, based on [[pGP1331]]), available in [[Jörg Stülke]]'s lab

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>17114254, 7592499 23420519 24178028 </pubmed>

[[Category:Protein-coding genes]]

YqhY

2015-04-02T11:40:08Z

Dtoedter: /* Biological materials */

* '''Description:''' unknown 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''yqhY''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no {{PubMed|24178028}}
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24330 yqhY]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=yqhY yqhY]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 14 kDa, 4.414
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 405 bp, 135 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[nusB]]'', ''[[accC]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24330 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24330 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24330 DNA_with_flanks]
|-
|-
|-
|colspan="2" | '''Genetic context''' [[Image:yqhY_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhY_2529926_2530333_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:yqhY_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24330]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[proteins of unknown function]]}}

= This gene is a member of the following [[regulons]] =

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU24330

===Phenotypes of a mutant ===

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24330&redirect=T BSU24330]

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/accBC-yqhY.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11709]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:''' asp23 family (according to Swiss-Prot)

* '''Paralogous protein(s):''' [[YloU]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''

* '''[[Localization]]:'''

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24330&redirect=T BSU24330]

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P54519 P54519]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24330]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[accB]]-[[accC]]-[[yqhY]]'' {{PubMed|7592499}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhY_2529926_2530333_-1 yqhY] {{PubMed|22383849}}

* '''[[Sigma factor]]:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''
** number of protein molecules per cell (minimal medium with glucose and ammonium): 127 {{PubMed|24696501}}
** number of protein molecules per cell (complex medium with amino acids, without glucose): 893 {{PubMed|24696501}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 4905 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 3644 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 4928 {{PubMed|21395229}}

=Biological materials =
* '''Mutant:'''
** GP1468 (''yqhY''::''erm''), available in [[Jörg Stülke]]'s lab {{PubMed|24178028}}
** GP1765 (''yqhY''::''cat''), available in [[Jörg Stülke]]'s lab {{PubMed|24178028}}
** GP1474 (chromosomal ''yqhY''-Strep fusion, ''aphA''3), purification from ''B. subtilis'', for [[SPINE]], available in [[Jörg Stülke]]'s lab'''

* '''Expression vector:'''
** pGP1322 (N-terminal Strep-tag, purification from ''E. coli'', in [[pGP172]]), available in [[Jörg Stülke]]'s lab
** pGP1325 (N-terminal His-tag, purification from ''E. coli'', in [[pWH844]]), available in [[Jörg Stülke]]'s lab
** pGP1496 (His-tag, purification from ''E. coli'', in pET28a+), available in [[Jörg Stülke]]'s lab
** pGP1498 (N-terminal His-tag, TEV-site, purification from ''E. coli'', in [[pWH844]]), available in [[Jörg Stülke]]'s lab

* '''lacZ fusion:'''

* '''GFP fusion:'''
** GP1471 (spc, based on [[pBP43]]), available in [[Jörg Stülke]]'s lab

* '''YFP fusion:'''
** GP1492 (cat, available in [[Jörg Stülke]]'s lab

* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab

* '''FLAG-tag construct:'''
** GP1481 (''spc'', based on [[pGP1331]]), available in [[Jörg Stülke]]'s lab

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>17114254, 7592499 23420519 24178028 </pubmed>

[[Category:Protein-coding genes]]

DivIVA

2015-03-06T13:17:38Z

Dtoedter: /* Biological materials */

* '''Description:''' curvature sensitive membrane binding protein that recruits other proteins to the poles and the division septum, cell-division initiation protein (septum placement), part of the Min system (with [[MinC]], [[MinD]], [[MinJ]]), [[Noc]] and the Min system ensure the efficient utilization of the division site at midcell in by ensuring [[FtsZ|Z ring]] placement 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''divIVA''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ylmJ ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || cell-division initiation protein
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || septum placement
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU15420 divIVA]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=DivIVA DivIVA]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 19 kDa, 4.846
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 492 bp, 164 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ylmH]]'', ''[[ileS]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU15420 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU15420 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU15420 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:divIVA_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=divIVA_1612521_1613015_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:divIVA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU15420]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[cell division]]}},
{{SubtiWiki category|[[membrane proteins]]}},
{{SubtiWiki category|[[phosphoproteins]]}}

= This gene is a member of the following [[regulons]] =
{{SubtiWiki regulon|[[Spo0A regulon]]}}

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU15420

===Phenotypes of a mutant ===
* Deletion of ''divIVA'' leads to filamentation and polar divisions that in turn cause a minicell phenotype. [http://www.ncbi.nlm.nih.gov/sites/entrez/9219999 PubMed]
* A ''divIVA'' mutant has a severe [[sporulation]] defect. [http://www.ncbi.nlm.nih.gov/sites/entrez/11445541 PubMed]

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU15420&redirect=T BSU15420]

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/divIVA.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11835]

=== Additional information===
Filamentation is suppressed by mutations in minCD [http://www.ncbi.nlm.nih.gov/sites/entrez/9045828 PubMed].

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''
** curvature sensitive membrane binding protein that recruits other proteins to the poles and the division septum
** DivIVA is required for polar localisation of [[MinC]]-[[MinD]] via [[MinJ]]. [http://www.ncbi.nlm.nih.gov/sites/entrez/19019154 PubMed]
** It also recruits [[RacA]] to the distal pole of the prespore [http://www.ncbi.nlm.nih.gov/sites/entrez/12493822 PubMed].
** DivIVA may anchor [[SpoIIE]] briefly to the assembling polar septum before [[SpoIIE]] is subsequently released into the forespore membrane and recaptured at the polar septum {{PubMed|25101664}}
** required for the compartment-specific activation of [[SigF]] {{PubMed|25101664}}

* '''Protein family:''' gpsB family (according to Swiss-Prot)

* '''Paralogous protein(s):''' [[GpsB]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''[[Domains]]:'''
** the first 60 amino acids constitute a conserved lipid binding domain. [http://www.ncbi.nlm.nih.gov/sites/entrez/19478798 PubMed]
** the C-terminal domain is less conserved
** multimerisation involves two coiled-coil motifs, one in the lipid binding domain, and the other one being present in the helical C-terminal domain {{PubMed|18388125}} {{PubMed|23264578}}

* '''Modification:'''
** phosphorylated on Arg-102 {{PubMed|22517742}}
** The ''Mycobacterium'' DivIVA homologue Wag31 is phosphorylated at T73 [http://www.ncbi.nlm.nih.gov/sites/entrez/15985609 PubMed]
** DivIVA from ''Streptococcus pneumoniae'' is phosphorylated at Threonine 201 by the Ser/Thr protein kinase Sktp1. [http://www.ncbi.nlm.nih.gov/sites/entrez/20453092 PubMed][http://www.ncbi.nlm.nih.gov/sites/entrez/22211696 PubMed]

* '''[[Cofactors]]:''' not known

* '''Effectors of protein activity:''' not known

* '''[[SubtInteract|Interactions]]:'''
** ([[MinC]]-[[MinD]])-[[MinJ]]-[[DivIVA]] {{PubMed|20352045}}, [[MinJ]] binds to the N-terminal lipid-binding domain of [[DivIVA]] {{PubMed|23264578}}
** [[DivIVA]]-[[RacA]], [[RacA]] binds to the C-terminal domain of [[DivIVA]] {{PubMed|23264578}}
** [[DivIVA]]-[[DivIVA]] {{PubMed|23264578}}
** [[Maf]]-[[DivIVA]] {{PubMed|21564336}}
** [[DivIVA]]-[[ComN]] {{PubMed|22582279}}
** [[DivIVA]]-[[SecA]] {{PubMed|24592260}}
** [[DivIVA]]-[[SpoIIE]] {{PubMed|25101664}}

* '''[[Localization]]:'''
** DivIVA forms a ring underneath the invaginating membrane at the site of cell division and is enriched at both cell poles [http://www.ncbi.nlm.nih.gov/sites/entrez/9219999 PubMed].
** forms rings at the division septum and patches at the cell poles {{PubMed|22108385}}
** membrane targeting requires [[SecA]] {{PubMed|24592260}}
** assembles into a ring-like structure at the polar septum during [[sporulation]] {{PubMed|25101664}}
=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU15420&redirect=T BSU15420]

* '''Structure:''' [http://www.pdb.org/pdb/explore/explore.do?structureId=2WUJ 2WUJ] (N-terminal domain) {{PubMed|20502438}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/P71021 P71021]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU15420]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''divIVA'' [http://www.ncbi.nlm.nih.gov/sites/entrez/16420366 PubMed]

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=divIVA_1612521_1613015_1 divIVA] {{PubMed|22383849}}

* '''[[Sigma factor]]:'''

* '''Regulation:'''
** repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]
** constitutively expressed {{PubMed|23701187}}

* '''Regulatory mechanism:'''
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]

* '''Additional information:'''
** number of protein molecules per cell (minimal medium with glucose and ammonium): 1595 {{PubMed|24696501}}
** number of protein molecules per cell (complex medium with amino acids, without glucose): 3553 {{PubMed|24696501}}

=Biological materials =

* '''Mutant:'''
** 4041 (''divIVA''::''tet''), available in [[Leendert Hamoen]]'s, [[Jörg Stülke]]'s, and [[Sven Halbedel]] 's lab
** GP1482 (chromosomal ''divIVA''-Strep fusion, ''aphA''3), purification from ''B. subtilis'', for [[SPINE]], available in [[Jörg Stülke]]'s lab'''

* '''Expression vector:'''
** DivIVA-Strep available [http://www.rki.de/DE/Content/Institut/OrgEinheiten/Abt1/FG11/AG_LM.html here]
** pGP1497 (N-terminal Strep-tag fused to C-terminus of ''divIVA'', TEV-site, purification from ''E. coli'', in [[pGP172]]), available in [[Jörg Stülke]]'s lab

* '''lacZ fusion:'''

* '''GFP fusion:''' divIVA-gfp fusions available from the [http://subtiwiki.uni-goettingen.de/wiki/index.php/Leendert_Hamoen Hamoen] Lab

* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Sven Halbedel]]'s and [[Jörg Stülke]]'s labs

* '''Antibody:''' A polyclonal anti-DivIVA antiserum generated in rabbit is described here {{PubMed|11445541}}.

=Labs working on this gene/protein=

[[Leendert Hamoen]], Centre for Bacterial Cell Biology, Newcastle upon Tyne, United Kingdom [http://www.ncl.ac.uk/camb/staff/profile/l.hamoen]

[[Imrich Barak]], Slovak Academy of Science, Bratislava, Slovakia [http://imb.savba.sk/~barak/ homepage]

[[Sven Halbedel]], Robert Koch Institute [http://www.rki.de/DE/Content/Institut/OrgEinheiten/Abt1/FG11/AG_LM.html homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed> 19654604, 19884039 22722244 23182676 </pubmed>

==Original Publications==
<pubmed>22582279, 19654604, 19666580,9219999,19019154,15554965, 12368265,11445541,10835369,12511520,14651647, 19478798 ,19429628, 11445541, 9219999, 9045828 20352045 20502438 11886553 21564336 22108385 22457634 22517742 22661688 23264578 23701187 23927765 24391905 24592260 24600441 25101664 </pubmed>
[[Category:Protein-coding genes]]

DivIVA

2015-03-06T13:14:13Z

Dtoedter: /* Biological materials */

* '''Description:''' curvature sensitive membrane binding protein that recruits other proteins to the poles and the division septum, cell-division initiation protein (septum placement), part of the Min system (with [[MinC]], [[MinD]], [[MinJ]]), [[Noc]] and the Min system ensure the efficient utilization of the division site at midcell in by ensuring [[FtsZ|Z ring]] placement 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''divIVA''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ylmJ ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || cell-division initiation protein
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || septum placement
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU15420 divIVA]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=DivIVA DivIVA]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 19 kDa, 4.846
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 492 bp, 164 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ylmH]]'', ''[[ileS]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU15420 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU15420 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU15420 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:divIVA_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=divIVA_1612521_1613015_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:divIVA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU15420]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[cell division]]}},
{{SubtiWiki category|[[membrane proteins]]}},
{{SubtiWiki category|[[phosphoproteins]]}}

= This gene is a member of the following [[regulons]] =
{{SubtiWiki regulon|[[Spo0A regulon]]}}

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU15420

===Phenotypes of a mutant ===
* Deletion of ''divIVA'' leads to filamentation and polar divisions that in turn cause a minicell phenotype. [http://www.ncbi.nlm.nih.gov/sites/entrez/9219999 PubMed]
* A ''divIVA'' mutant has a severe [[sporulation]] defect. [http://www.ncbi.nlm.nih.gov/sites/entrez/11445541 PubMed]

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU15420&redirect=T BSU15420]

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/divIVA.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11835]

=== Additional information===
Filamentation is suppressed by mutations in minCD [http://www.ncbi.nlm.nih.gov/sites/entrez/9045828 PubMed].

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''
** curvature sensitive membrane binding protein that recruits other proteins to the poles and the division septum
** DivIVA is required for polar localisation of [[MinC]]-[[MinD]] via [[MinJ]]. [http://www.ncbi.nlm.nih.gov/sites/entrez/19019154 PubMed]
** It also recruits [[RacA]] to the distal pole of the prespore [http://www.ncbi.nlm.nih.gov/sites/entrez/12493822 PubMed].
** DivIVA may anchor [[SpoIIE]] briefly to the assembling polar septum before [[SpoIIE]] is subsequently released into the forespore membrane and recaptured at the polar septum {{PubMed|25101664}}
** required for the compartment-specific activation of [[SigF]] {{PubMed|25101664}}

* '''Protein family:''' gpsB family (according to Swiss-Prot)

* '''Paralogous protein(s):''' [[GpsB]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''[[Domains]]:'''
** the first 60 amino acids constitute a conserved lipid binding domain. [http://www.ncbi.nlm.nih.gov/sites/entrez/19478798 PubMed]
** the C-terminal domain is less conserved
** multimerisation involves two coiled-coil motifs, one in the lipid binding domain, and the other one being present in the helical C-terminal domain {{PubMed|18388125}} {{PubMed|23264578}}

* '''Modification:'''
** phosphorylated on Arg-102 {{PubMed|22517742}}
** The ''Mycobacterium'' DivIVA homologue Wag31 is phosphorylated at T73 [http://www.ncbi.nlm.nih.gov/sites/entrez/15985609 PubMed]
** DivIVA from ''Streptococcus pneumoniae'' is phosphorylated at Threonine 201 by the Ser/Thr protein kinase Sktp1. [http://www.ncbi.nlm.nih.gov/sites/entrez/20453092 PubMed][http://www.ncbi.nlm.nih.gov/sites/entrez/22211696 PubMed]

* '''[[Cofactors]]:''' not known

* '''Effectors of protein activity:''' not known

* '''[[SubtInteract|Interactions]]:'''
** ([[MinC]]-[[MinD]])-[[MinJ]]-[[DivIVA]] {{PubMed|20352045}}, [[MinJ]] binds to the N-terminal lipid-binding domain of [[DivIVA]] {{PubMed|23264578}}
** [[DivIVA]]-[[RacA]], [[RacA]] binds to the C-terminal domain of [[DivIVA]] {{PubMed|23264578}}
** [[DivIVA]]-[[DivIVA]] {{PubMed|23264578}}
** [[Maf]]-[[DivIVA]] {{PubMed|21564336}}
** [[DivIVA]]-[[ComN]] {{PubMed|22582279}}
** [[DivIVA]]-[[SecA]] {{PubMed|24592260}}
** [[DivIVA]]-[[SpoIIE]] {{PubMed|25101664}}

* '''[[Localization]]:'''
** DivIVA forms a ring underneath the invaginating membrane at the site of cell division and is enriched at both cell poles [http://www.ncbi.nlm.nih.gov/sites/entrez/9219999 PubMed].
** forms rings at the division septum and patches at the cell poles {{PubMed|22108385}}
** membrane targeting requires [[SecA]] {{PubMed|24592260}}
** assembles into a ring-like structure at the polar septum during [[sporulation]] {{PubMed|25101664}}
=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU15420&redirect=T BSU15420]

* '''Structure:''' [http://www.pdb.org/pdb/explore/explore.do?structureId=2WUJ 2WUJ] (N-terminal domain) {{PubMed|20502438}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/P71021 P71021]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU15420]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''divIVA'' [http://www.ncbi.nlm.nih.gov/sites/entrez/16420366 PubMed]

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=divIVA_1612521_1613015_1 divIVA] {{PubMed|22383849}}

* '''[[Sigma factor]]:'''

* '''Regulation:'''
** repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]
** constitutively expressed {{PubMed|23701187}}

* '''Regulatory mechanism:'''
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]

* '''Additional information:'''
** number of protein molecules per cell (minimal medium with glucose and ammonium): 1595 {{PubMed|24696501}}
** number of protein molecules per cell (complex medium with amino acids, without glucose): 3553 {{PubMed|24696501}}

=Biological materials =

* '''Mutant:'''
** 4041 (''divIVA''::''tet''), available in [[Leendert Hamoen]]'s, [[Jörg Stülke]]'s, and [[Sven Halbedel]] 's lab
** GP1482 (chromosomal ''divIVA''-Strep fusion, ''aphA''3), purification from ''B. subtilis'', for [[SPINE]], available in [[Jörg Stülke]]'s lab'''

* '''Expression vector:'''
** DivIVA-Strep available [http://www.rki.de/DE/Content/Institut/OrgEinheiten/Abt1/FG11/AG_LM.html here]
** pGP1497 (N-terminal Strep-tag fused to C-terminus of ''divIVA'', TEV-site purification from ''E. coli'', in [[pGP172]]), available in [[Jörg Stülke]]'s lab

* '''lacZ fusion:'''

* '''GFP fusion:''' divIVA-gfp fusions available from the [http://subtiwiki.uni-goettingen.de/wiki/index.php/Leendert_Hamoen Hamoen] Lab

* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Sven Halbedel]]'s and [[Jörg Stülke]]'s labs

* '''Antibody:''' A polyclonal anti-DivIVA antiserum generated in rabbit is described here {{PubMed|11445541}}.

=Labs working on this gene/protein=

[[Leendert Hamoen]], Centre for Bacterial Cell Biology, Newcastle upon Tyne, United Kingdom [http://www.ncl.ac.uk/camb/staff/profile/l.hamoen]

[[Imrich Barak]], Slovak Academy of Science, Bratislava, Slovakia [http://imb.savba.sk/~barak/ homepage]

[[Sven Halbedel]], Robert Koch Institute [http://www.rki.de/DE/Content/Institut/OrgEinheiten/Abt1/FG11/AG_LM.html homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed> 19654604, 19884039 22722244 23182676 </pubmed>

==Original Publications==
<pubmed>22582279, 19654604, 19666580,9219999,19019154,15554965, 12368265,11445541,10835369,12511520,14651647, 19478798 ,19429628, 11445541, 9219999, 9045828 20352045 20502438 11886553 21564336 22108385 22457634 22517742 22661688 23264578 23701187 23927765 24391905 24592260 24600441 25101664 </pubmed>
[[Category:Protein-coding genes]]

YqhY

2015-03-06T12:57:37Z

Dtoedter: /* Biological materials */

* '''Description:''' unknown 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''yqhY''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no {{PubMed|24178028}}
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24330 yqhY]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=yqhY yqhY]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 14 kDa, 4.414
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 405 bp, 135 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[nusB]]'', ''[[accC]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24330 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24330 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24330 DNA_with_flanks]
|-
|-
|-
|colspan="2" | '''Genetic context''' [[Image:yqhY_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhY_2529926_2530333_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:yqhY_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24330]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[proteins of unknown function]]}}

= This gene is a member of the following [[regulons]] =

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU24330

===Phenotypes of a mutant ===

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24330&redirect=T BSU24330]

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/accBC-yqhY.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11709]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:''' asp23 family (according to Swiss-Prot)

* '''Paralogous protein(s):''' [[YloU]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''

* '''[[Localization]]:'''

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24330&redirect=T BSU24330]

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P54519 P54519]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24330]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[accB]]-[[accC]]-[[yqhY]]'' {{PubMed|7592499}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhY_2529926_2530333_-1 yqhY] {{PubMed|22383849}}

* '''[[Sigma factor]]:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''
** number of protein molecules per cell (minimal medium with glucose and ammonium): 127 {{PubMed|24696501}}
** number of protein molecules per cell (complex medium with amino acids, without glucose): 893 {{PubMed|24696501}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 4905 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 3644 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 4928 {{PubMed|21395229}}

=Biological materials =
* '''Mutant:'''
** GP1468 (''yqhY''::''erm''), available in [[Jörg Stülke]]'s lab {{PubMed|24178028}}
** GP1474 (chromosomal ''yqhY''-Strep fusion, ''aphA''3), purification from ''B. subtilis'', for [[SPINE]], available in [[Jörg Stülke]]'s lab'''

* '''Expression vector:'''
** pGP1322 (N-terminal Strep-tag, purification from ''E. coli'', in [[pGP172]]), available in [[Jörg Stülke]]'s lab
** pGP1325 (N-terminal His-tag, purification from ''E. coli'', in [[pWH844]]), available in [[Jörg Stülke]]'s lab
** pGP1496 (His-tag, purification from ''E. coli'', in pET28a+), available in [[Jörg Stülke]]'s lab
** pGP1498 (N-terminal His-tag, TEV-site, purification from ''E. coli'', in [[pWH844]]), available in [[Jörg Stülke]]'s lab

* '''lacZ fusion:'''

* '''GFP fusion:'''
** GP1471 (spc, based on [[pBP43]]), available in [[Jörg Stülke]]'s lab

* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab

* '''FLAG-tag construct:'''
** GP1481 (''spc'', based on [[pGP1331]]), available in [[Jörg Stülke]]'s lab

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>17114254, 7592499 23420519 24178028 </pubmed>

[[Category:Protein-coding genes]]

YqhY

2015-03-06T11:23:13Z

Dtoedter: /* Biological materials */

* '''Description:''' unknown 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''yqhY''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no {{PubMed|24178028}}
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24330 yqhY]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=yqhY yqhY]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 14 kDa, 4.414
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 405 bp, 135 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[nusB]]'', ''[[accC]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24330 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24330 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24330 DNA_with_flanks]
|-
|-
|-
|colspan="2" | '''Genetic context''' [[Image:yqhY_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhY_2529926_2530333_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:yqhY_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24330]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[proteins of unknown function]]}}

= This gene is a member of the following [[regulons]] =

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU24330

===Phenotypes of a mutant ===

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24330&redirect=T BSU24330]

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/accBC-yqhY.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11709]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:''' asp23 family (according to Swiss-Prot)

* '''Paralogous protein(s):''' [[YloU]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''

* '''[[Localization]]:'''

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24330&redirect=T BSU24330]

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P54519 P54519]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24330]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[accB]]-[[accC]]-[[yqhY]]'' {{PubMed|7592499}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhY_2529926_2530333_-1 yqhY] {{PubMed|22383849}}

* '''[[Sigma factor]]:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''
** number of protein molecules per cell (minimal medium with glucose and ammonium): 127 {{PubMed|24696501}}
** number of protein molecules per cell (complex medium with amino acids, without glucose): 893 {{PubMed|24696501}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 4905 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 3644 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 4928 {{PubMed|21395229}}

=Biological materials =
* '''Mutant:'''
** GP1468 (''yqhY''::''erm''), available in [[Jörg Stülke]]'s lab {{PubMed|24178028}}
** GP1474 (chromosomal ''yqhY''-Strep fusion, ''aphA''3), purification from ''B. subtilis'', for [[SPINE]], available in [[Jörg Stülke]]'s lab'''

* '''Expression vector:'''
** pGP1322 (N-terminal Strep-tag, purification from ''E. coli'', in [[pGP172]]), available in [[Jörg Stülke]]'s lab
** pGP1325 (N-terminal His-tag, purification from ''E. coli'', in [[pWH844]]), available in [[Jörg Stülke]]'s lab
** pGP1496 (His-tag, purification from ''E. coli'', in pET28a+), available in [[Jörg Stülke]]'s lab

* '''lacZ fusion:'''

* '''GFP fusion:'''
** GP1471 (spc, based on [[pBP43]]), available in [[Jörg Stülke]]'s lab

* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab

* '''FLAG-tag construct:'''
** GP1476 (''spc'', based on [[pGP1331]]), available in [[Jörg Stülke]]'s lab
** GP1481 (''spc'', based on [[pGP1331]]), available in [[Jörg Stülke]]'s lab

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>17114254, 7592499 23420519 24178028 </pubmed>

[[Category:Protein-coding genes]]

YqhY

2015-03-06T10:48:22Z

Dtoedter: /* Biological materials */

* '''Description:''' unknown 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''yqhY''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no {{PubMed|24178028}}
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24330 yqhY]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=yqhY yqhY]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 14 kDa, 4.414
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 405 bp, 135 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[nusB]]'', ''[[accC]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24330 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24330 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24330 DNA_with_flanks]
|-
|-
|-
|colspan="2" | '''Genetic context''' [[Image:yqhY_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhY_2529926_2530333_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:yqhY_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24330]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[proteins of unknown function]]}}

= This gene is a member of the following [[regulons]] =

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU24330

===Phenotypes of a mutant ===

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24330&redirect=T BSU24330]

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/accBC-yqhY.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11709]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:''' asp23 family (according to Swiss-Prot)

* '''Paralogous protein(s):''' [[YloU]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''

* '''[[Localization]]:'''

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24330&redirect=T BSU24330]

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P54519 P54519]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24330]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[accB]]-[[accC]]-[[yqhY]]'' {{PubMed|7592499}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhY_2529926_2530333_-1 yqhY] {{PubMed|22383849}}

* '''[[Sigma factor]]:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''
** number of protein molecules per cell (minimal medium with glucose and ammonium): 127 {{PubMed|24696501}}
** number of protein molecules per cell (complex medium with amino acids, without glucose): 893 {{PubMed|24696501}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 4905 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 3644 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 4928 {{PubMed|21395229}}

=Biological materials =
* '''Mutant:'''
** GP1468 (''yqhY''::''erm''), available in [[Jörg Stülke]]'s lab {{PubMed|24178028}}
** GP1474 (chromosomal ''yqhY''-Strep fusion, ''aphA''3), purification from ''B. subtilis'', for [[SPINE]], available in [[Jörg Stülke]]'s lab'''

* '''Expression vector:'''
** pGP1322 (N-terminal Strep-tag, purification from ''E. coli'', in [[pGP172]]), available in [[Jörg Stülke]]'s lab
** pGP1325 (N-terminal His-tag, purification from ''E. coli'', in [[pWH844]]), available in [[Jörg Stülke]]'s lab

* '''lacZ fusion:'''

* '''GFP fusion:'''
** GP1471 (spc, based on [[pBP43]]), available in [[Jörg Stülke]]'s lab

* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab

* '''FLAG-tag construct:'''
** GP1476 (''spc'', based on [[pGP1331]]), available in [[Jörg Stülke]]'s lab
** GP1481 (''spc'', based on [[pGP1331]]), available in [[Jörg Stülke]]'s lab

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>17114254, 7592499 23420519 24178028 </pubmed>

[[Category:Protein-coding genes]]

YqhY

2015-03-06T10:48:07Z

Dtoedter: /* Biological materials */

* '''Description:''' unknown 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''yqhY''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no {{PubMed|24178028}}
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24330 yqhY]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=yqhY yqhY]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 14 kDa, 4.414
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 405 bp, 135 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[nusB]]'', ''[[accC]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24330 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24330 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24330 DNA_with_flanks]
|-
|-
|-
|colspan="2" | '''Genetic context''' [[Image:yqhY_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhY_2529926_2530333_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:yqhY_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24330]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[proteins of unknown function]]}}

= This gene is a member of the following [[regulons]] =

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU24330

===Phenotypes of a mutant ===

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24330&redirect=T BSU24330]

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/accBC-yqhY.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11709]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:''' asp23 family (according to Swiss-Prot)

* '''Paralogous protein(s):''' [[YloU]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''

* '''[[Localization]]:'''

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24330&redirect=T BSU24330]

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P54519 P54519]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24330]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[accB]]-[[accC]]-[[yqhY]]'' {{PubMed|7592499}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhY_2529926_2530333_-1 yqhY] {{PubMed|22383849}}

* '''[[Sigma factor]]:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''
** number of protein molecules per cell (minimal medium with glucose and ammonium): 127 {{PubMed|24696501}}
** number of protein molecules per cell (complex medium with amino acids, without glucose): 893 {{PubMed|24696501}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 4905 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 3644 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 4928 {{PubMed|21395229}}

=Biological materials =
* '''Mutant:'''
** GP1468 (''yqhY''::''erm''), available in [[Jörg Stülke]]'s lab {{PubMed|24178028}}
** GP1474 (chromosomal ''yqhY''-Strep fusion, ''aphA''3), purification from ''B. subtilis'', for [[SPINE]], available in [[Jörg Stülke]]'s lab'''

* '''Expression vector:'''
** pGP1322 (N-terminal Strep-tag, purification from ''E. coli'', in [[pGP172]]), available in [[Jörg Stülke]]'s lab
** pGP1325 (N-terminal His-tag,purification from ''E. coli'', in [[pWH844]]), available in [[Jörg Stülke]]'s lab

* '''lacZ fusion:'''

* '''GFP fusion:'''
** GP1471 (spc, based on [[pBP43]]), available in [[Jörg Stülke]]'s lab

* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab

* '''FLAG-tag construct:'''
** GP1476 (''spc'', based on [[pGP1331]]), available in [[Jörg Stülke]]'s lab
** GP1481 (''spc'', based on [[pGP1331]]), available in [[Jörg Stülke]]'s lab

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>17114254, 7592499 23420519 24178028 </pubmed>

[[Category:Protein-coding genes]]

MinJ

2015-03-06T10:44:57Z

Dtoedter: /* Biological materials */

MinD

2015-03-06T10:44:40Z

Dtoedter: /* Biological materials */

* '''Description:''' cell-division inhibitor (septum placement), part of the Min system (with [[DivIVA]], [[MinC]], [[MinJ]]), [[Noc]] and the Min system ensure the efficient utilization of the division site at midcell in by ensuring [[FtsZ|Z ring]] placement 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''minD''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''divIVB1 ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || cell-division inhibitor
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || septum placement
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU27990 minD]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=MinD MinD]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 29 kDa, 4.984
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 804 bp, 268 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[spoIVFA]]'', ''[[minC]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU27990 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU27990 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU27990 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:minD_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=minD_2857776_2858582_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:minD_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU27990]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[cell division]]}},
{{SubtiWiki category|[[cell envelope stress proteins (controlled by SigM, V, W, X, Y)]]}},
{{SubtiWiki category|[[membrane proteins]]}}

= This gene is a member of the following [[regulons]] =
{{SubtiWiki regulon|[[SigH regulon]]}},
{{SubtiWiki regulon|[[SigM regulon]]}}

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU27990

===Phenotypes of a mutant ===
* a ''[[yvcL]] [[minC]]-[[minD]]'' mutant grows poorly, and the cells are filamentous {{PubMed|24097947}}

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU27990&redirect=T BSU27990]

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/mreBCD-minCD.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10330]

=== Additional information===
* A mutation was found in this gene after evolution under relaxed selection for sporulation {{PubMed|21821766}}

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' The Min system prevents minicell formation adjacent to recently completed division sites by promoting the disassembly of the cytokinetic ring, thereby ensuring that cell division occurs only once per cell cycle {{PubMed|20352045}}

* '''Protein family:''' MinD subfamily (according to Swiss-Prot)

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''[[Domains]]:'''

* '''Modification:'''

* '''[[Cofactors]]:'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''
** ([[MinC]]-[[MinD]])-[[MinJ]]-[[DivIVA]] {{PubMed|20352045}}

* '''[[Localization]]:'''
** polar/ septal at the cell membrane {{PubMed|20566861}}
** membrane binding/ polar localization depends on the proton motive force {{PubMed|20566861}}

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU27990&redirect=T BSU27990]

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/Q01464 Q01464]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU27990]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=
* '''Operon:'''
** ''[[radC]]-[[mreB]]-[[mreC]]-[[mreD]]-[[minC]]-[[minD]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/18179421 PubMed]
** ''[[mreB]]-[[mreC]]-[[mreD]]-[[minC]]-[[minD]]'' {{PubMed|8459776}}
** ''[[minC]]-[[minD]]'' {{PubMed|8459776}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=minD_2857776_2858582_-1 minD] {{PubMed|22383849}}

* '''[[Sigma factor]]:'''
** ''[[radC]]'': [[SigM]] {{PubMed|18179421}}
** ''[[minC]]'': [[SigH]] {{PubMed|8459776}}

* '''Regulation:'''
** expression is reduced in a [[SigV]] mutant {{PubMed|21926231}}

* '''Regulatory mechanism:'''

* '''Additional information:'''
** number of protein molecules per cell (minimal medium with glucose and ammonium): 716 {{PubMed|24696501}}
** number of protein molecules per cell (complex medium with amino acids, without glucose): 813 {{PubMed|24696501}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 3544 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 1500 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 6195 {{PubMed|21395229}}

=Biological materials =
* '''Mutant:'''

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=
==Reviews==
<pubmed> 19884039 24367361</pubmed>
==Original Publications==
<pubmed>8459776,19019154,11886553,9808628,1400224,12368265,10411726,15317782,12492861, 20352045, 11886553 20566861 18179421 21821766 22457634 21926231 24097947 25374563 </pubmed>

[[Category:Protein-coding genes]]

MinC

2015-03-06T10:44:17Z

Dtoedter: /* Biological materials */

AccD

2015-03-06T10:40:34Z

Dtoedter: /* Biological materials */

AccA

2015-03-06T10:34:36Z

Dtoedter: /* Biological materials */

* '''Description:''' acetyl-CoA carboxylase (alpha subunit) 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''accA''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || acetyl-CoA carboxylase (alpha subunit))
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || production of malonyl-CoA, the substrate for fatty acid biosynthesis
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU29200 accA]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=AccA AccA]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=accA accA]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 36 kDa, 6.087
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 975 bp, 325 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[pfkA]]'', ''[[accD]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU29200 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU29200 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU29200 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:accA_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=accA_2987731_2988708_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:accA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU29200]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[biosynthesis of lipids]]}},
{{SubtiWiki category|[[essential genes]]}}

= This gene is a member of the following [[regulons]] =
{{SubtiWiki regulon|[[Spo0A regulon]]}}

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU29200

===Phenotypes of a mutant ===

essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU29200&redirect=T BSU29200]

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/accDA.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12557]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' ATP + acetyl-CoA + HCO3- = ADP + phosphate + malonyl-CoA (according to Swiss-Prot)

* '''Protein family:''' accA family (according to Swiss-Prot)

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''
** ([[AccA]]-[[AccD]])-[[AccB]]-[[AccC]] (acetyl-CoA carboxylase complex)

* '''[[Localization]]:''' cytoplasm (according to Swiss-Prot), Membrane-proximal (Spotty) [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU29200&redirect=T BSU29200]

* '''Structure:''' [http://www.rcsb.org/pdb/explore/explore.do?structureId=2F9I 2F9I] (from ''Staphylococcus aureus''; equivalent to [[AccD]]-[[AccA]], 64% identity) {{PubMed|16460018}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/O34847 O34847]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU29200]

* '''E.C. number:''' [http://www.expasy.org/enzyme/6.4.1.2 6.4.1.2]

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[accD]]-[[accA]]'' {{PubMed|22383849}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=accA_2987731_2988708_-1 accA] {{PubMed|22383849}}

* '''Sigma factor:'''

* '''Regulation:'''
** expressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]

* '''Regulatory mechanism:'''
** [[Spo0A]]: transcription activation [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]

* '''Additional information:'''
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 1047 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 795 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 910 {{PubMed|21395229}}

=Biological materials =
* '''Mutant:'''

* '''Expression vector:'''
** purification from ''B. subtilis'' with an C-terminal Strep-tag, for [[SPINE]], (in [[pGP382]]): pGP1723, available in [[Jörg Stülke]]'s lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab

* '''FLAG-tag construct:'''
** GP1487 (''spc'', based on [[pGP1331]]), available in [[Jörg Stülke]]'s lab

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=
==Reviews==
<pubmed> 15952903, 17919287 12121720 15968460 </pubmed>

==Original Publications==
<pubmed>15066985, 16460018,14651647,16479537 12663926 22383849</pubmed>

[[Category:Protein-coding genes]]

DivIVA

2015-03-06T10:25:53Z

Dtoedter: /* Biological materials */

* '''Description:''' curvature sensitive membrane binding protein that recruits other proteins to the poles and the division septum, cell-division initiation protein (septum placement), part of the Min system (with [[MinC]], [[MinD]], [[MinJ]]), [[Noc]] and the Min system ensure the efficient utilization of the division site at midcell in by ensuring [[FtsZ|Z ring]] placement 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''divIVA''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ylmJ ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || cell-division initiation protein
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || septum placement
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU15420 divIVA]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=DivIVA DivIVA]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 19 kDa, 4.846
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 492 bp, 164 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ylmH]]'', ''[[ileS]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU15420 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU15420 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU15420 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:divIVA_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=divIVA_1612521_1613015_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:divIVA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU15420]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[cell division]]}},
{{SubtiWiki category|[[membrane proteins]]}},
{{SubtiWiki category|[[phosphoproteins]]}}

= This gene is a member of the following [[regulons]] =
{{SubtiWiki regulon|[[Spo0A regulon]]}}

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU15420

===Phenotypes of a mutant ===
* Deletion of ''divIVA'' leads to filamentation and polar divisions that in turn cause a minicell phenotype. [http://www.ncbi.nlm.nih.gov/sites/entrez/9219999 PubMed]
* A ''divIVA'' mutant has a severe [[sporulation]] defect. [http://www.ncbi.nlm.nih.gov/sites/entrez/11445541 PubMed]

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU15420&redirect=T BSU15420]

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/divIVA.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11835]

=== Additional information===
Filamentation is suppressed by mutations in minCD [http://www.ncbi.nlm.nih.gov/sites/entrez/9045828 PubMed].

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''
** curvature sensitive membrane binding protein that recruits other proteins to the poles and the division septum
** DivIVA is required for polar localisation of [[MinC]]-[[MinD]] via [[MinJ]]. [http://www.ncbi.nlm.nih.gov/sites/entrez/19019154 PubMed]
** It also recruits [[RacA]] to the distal pole of the prespore [http://www.ncbi.nlm.nih.gov/sites/entrez/12493822 PubMed].
** DivIVA may anchor [[SpoIIE]] briefly to the assembling polar septum before [[SpoIIE]] is subsequently released into the forespore membrane and recaptured at the polar septum {{PubMed|25101664}}
** required for the compartment-specific activation of [[SigF]] {{PubMed|25101664}}

* '''Protein family:''' gpsB family (according to Swiss-Prot)

* '''Paralogous protein(s):''' [[GpsB]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''[[Domains]]:'''
** the first 60 amino acids constitute a conserved lipid binding domain. [http://www.ncbi.nlm.nih.gov/sites/entrez/19478798 PubMed]
** the C-terminal domain is less conserved
** multimerisation involves two coiled-coil motifs, one in the lipid binding domain, and the other one being present in the helical C-terminal domain {{PubMed|18388125}} {{PubMed|23264578}}

* '''Modification:'''
** phosphorylated on Arg-102 {{PubMed|22517742}}
** The ''Mycobacterium'' DivIVA homologue Wag31 is phosphorylated at T73 [http://www.ncbi.nlm.nih.gov/sites/entrez/15985609 PubMed]
** DivIVA from ''Streptococcus pneumoniae'' is phosphorylated at Threonine 201 by the Ser/Thr protein kinase Sktp1. [http://www.ncbi.nlm.nih.gov/sites/entrez/20453092 PubMed][http://www.ncbi.nlm.nih.gov/sites/entrez/22211696 PubMed]

* '''[[Cofactors]]:''' not known

* '''Effectors of protein activity:''' not known

* '''[[SubtInteract|Interactions]]:'''
** ([[MinC]]-[[MinD]])-[[MinJ]]-[[DivIVA]] {{PubMed|20352045}}, [[MinJ]] binds to the N-terminal lipid-binding domain of [[DivIVA]] {{PubMed|23264578}}
** [[DivIVA]]-[[RacA]], [[RacA]] binds to the C-terminal domain of [[DivIVA]] {{PubMed|23264578}}
** [[DivIVA]]-[[DivIVA]] {{PubMed|23264578}}
** [[Maf]]-[[DivIVA]] {{PubMed|21564336}}
** [[DivIVA]]-[[ComN]] {{PubMed|22582279}}
** [[DivIVA]]-[[SecA]] {{PubMed|24592260}}
** [[DivIVA]]-[[SpoIIE]] {{PubMed|25101664}}

* '''[[Localization]]:'''
** DivIVA forms a ring underneath the invaginating membrane at the site of cell division and is enriched at both cell poles [http://www.ncbi.nlm.nih.gov/sites/entrez/9219999 PubMed].
** forms rings at the division septum and patches at the cell poles {{PubMed|22108385}}
** membrane targeting requires [[SecA]] {{PubMed|24592260}}
** assembles into a ring-like structure at the polar septum during [[sporulation]] {{PubMed|25101664}}
=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU15420&redirect=T BSU15420]

* '''Structure:''' [http://www.pdb.org/pdb/explore/explore.do?structureId=2WUJ 2WUJ] (N-terminal domain) {{PubMed|20502438}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/P71021 P71021]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU15420]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''divIVA'' [http://www.ncbi.nlm.nih.gov/sites/entrez/16420366 PubMed]

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=divIVA_1612521_1613015_1 divIVA] {{PubMed|22383849}}

* '''[[Sigma factor]]:'''

* '''Regulation:'''
** repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]
** constitutively expressed {{PubMed|23701187}}

* '''Regulatory mechanism:'''
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]

* '''Additional information:'''
** number of protein molecules per cell (minimal medium with glucose and ammonium): 1595 {{PubMed|24696501}}
** number of protein molecules per cell (complex medium with amino acids, without glucose): 3553 {{PubMed|24696501}}

=Biological materials =

* '''Mutant:'''
** 4041 (''divIVA''::''tet''), available in [[Leendert Hamoen]]'s, [[Jörg Stülke]]'s, and [[Sven Halbedel]] 's lab
** GP1482 (chromosomal ''divIVA''-Strep fusion, ''aphA''3), purification from ''B. subtilis'', for [[SPINE]], available in [[Jörg Stülke]]'s lab'''

* '''Expression vector:''' DivIVA-Strep available [http://www.rki.de/DE/Content/Institut/OrgEinheiten/Abt1/FG11/AG_LM.html here]

* '''lacZ fusion:'''

* '''GFP fusion:''' divIVA-gfp fusions available from the [http://subtiwiki.uni-goettingen.de/wiki/index.php/Leendert_Hamoen Hamoen] Lab

* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Sven Halbedel]]'s and [[Jörg Stülke]]'s labs

* '''Antibody:''' A polyclonal anti-DivIVA antiserum generated in rabbit is described here {{PubMed|11445541}}.

=Labs working on this gene/protein=

[[Leendert Hamoen]], Centre for Bacterial Cell Biology, Newcastle upon Tyne, United Kingdom [http://www.ncl.ac.uk/camb/staff/profile/l.hamoen]

[[Imrich Barak]], Slovak Academy of Science, Bratislava, Slovakia [http://imb.savba.sk/~barak/ homepage]

[[Sven Halbedel]], Robert Koch Institute [http://www.rki.de/DE/Content/Institut/OrgEinheiten/Abt1/FG11/AG_LM.html homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed> 19654604, 19884039 22722244 23182676 </pubmed>

==Original Publications==
<pubmed>22582279, 19654604, 19666580,9219999,19019154,15554965, 12368265,11445541,10835369,12511520,14651647, 19478798 ,19429628, 11445541, 9219999, 9045828 20352045 20502438 11886553 21564336 22108385 22457634 22517742 22661688 23264578 23701187 23927765 24391905 24592260 24600441 25101664 </pubmed>
[[Category:Protein-coding genes]]

AccB

2015-03-06T10:23:51Z

Dtoedter: /* Biological materials */

* '''Description:''' acetyl-CoA carboxylase (biotin carboxyl carrier subunit) 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''accB''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''fabE, yqhW ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || acetyl-CoA carboxylase (biotin carboxyl carrier subunit)
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || production of malonyl-CoA, the substrate for fatty acid biosynthesis
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24350 accB]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=AccB AccB]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=accB accB]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 17 kDa, 4.394
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 477 bp, 159 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[accC]]'', ''[[spoIIIAH]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24350 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24350 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24350 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:accB_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=accB_2531718_2532197_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:accB_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24350]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[biosynthesis of lipids]]}},
{{SubtiWiki category|[[essential genes]]}}

= This gene is a member of the following [[regulons]] =

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU24350

===Phenotypes of a mutant ===

essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24350&redirect=T BSU24350]

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/accBC-yqhY.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11383]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:'''

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''[[Cofactors]]:''' biotin

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''
** ([[AccA]]-[[AccD]])-[[AccB]]-[[AccC]] (acetyl-CoA carboxylase complex)

* '''[[Localization]]:'''

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24350&redirect=T BSU24350]

* '''Structure:''' [http://www.rcsb.org/pdb/explore/explore.do?structureId=1BDO 1BDO] (the protein from ''E. coli'') {{PubMed|8747466}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/P49786 P49786]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24350]

* '''E.C. number:''' [http://www.expasy.org/enzyme/6.4.1.2 6.4.1.2]

=== Additional information===

AccB binds to StrepTactin, and may be co-purified when purifying Strep-tagged proteins by [[SPINE]].

=Expression and regulation=

* '''Operon:''' ''[[accB]]-[[accC]]-[[yqhY]]'' {{PubMed|7592499}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=accB_2531718_2532197_-1 accB] {{PubMed|22383849}}

* '''Sigma factor:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 3355 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 889 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 28 {{PubMed|21395229}}

=Biological materials =
* '''Mutant:'''

* '''Expression vector:'''
** GP1477 (chromosomal ''accB''-Strep fusion, ''aphA''3), purification from ''B. subtilis'', for [[SPINE]], available in [[Jörg Stülke]]'s lab'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab

* '''FLAG-tag construct:'''
** GP1484 (''mls'', based on [[pGP1087]]), available in [[Jörg Stülke]]'s lab

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=
==Reviews==
<pubmed> 15952903 12121720 15968460 </pubmed>

==Original Publications==
<pubmed>7592499, 8747466, </pubmed>

[[Category:Protein-coding genes]]

YqhY

2015-03-06T10:21:31Z

Dtoedter: /* Biological materials */

* '''Description:''' unknown 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''yqhY''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no {{PubMed|24178028}}
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24330 yqhY]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=yqhY yqhY]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 14 kDa, 4.414
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 405 bp, 135 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[nusB]]'', ''[[accC]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24330 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24330 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24330 DNA_with_flanks]
|-
|-
|-
|colspan="2" | '''Genetic context''' [[Image:yqhY_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhY_2529926_2530333_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:yqhY_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24330]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[proteins of unknown function]]}}

= This gene is a member of the following [[regulons]] =

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU24330

===Phenotypes of a mutant ===

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24330&redirect=T BSU24330]

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/accBC-yqhY.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11709]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:''' asp23 family (according to Swiss-Prot)

* '''Paralogous protein(s):''' [[YloU]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''

* '''[[Localization]]:'''

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24330&redirect=T BSU24330]

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P54519 P54519]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24330]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[accB]]-[[accC]]-[[yqhY]]'' {{PubMed|7592499}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhY_2529926_2530333_-1 yqhY] {{PubMed|22383849}}

* '''[[Sigma factor]]:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''
** number of protein molecules per cell (minimal medium with glucose and ammonium): 127 {{PubMed|24696501}}
** number of protein molecules per cell (complex medium with amino acids, without glucose): 893 {{PubMed|24696501}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 4905 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 3644 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 4928 {{PubMed|21395229}}

=Biological materials =
* '''Mutant:'''
** GP1468 (''yqhY''::''erm''), available in [[Jörg Stülke]]'s lab {{PubMed|24178028}}
** GP1474 (chromosomal ''yqhY''-Strep fusion, ''aphA''3), purification from ''B. subtilis'', for [[SPINE]], available in [[Jörg Stülke]]'s lab'''

* '''Expression vector:'''
** pGP1322 (N-terminal Strep-tag, purification from ''E. coli'', in [[pGP172]]), available in [[Jörg Stülke]]'s lab
** pGP1325 (N-terminal His-tag, in [[pWH844]]), available in [[Jörg Stülke]]'s lab

* '''lacZ fusion:'''

* '''GFP fusion:'''
** GP1471 (spc, based on [[pBP43]]), available in [[Jörg Stülke]]'s lab

* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab

* '''FLAG-tag construct:'''
** GP1476 (''spc'', based on [[pGP1331]]), available in [[Jörg Stülke]]'s lab
** GP1481 (''spc'', based on [[pGP1331]]), available in [[Jörg Stülke]]'s lab

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>17114254, 7592499 23420519 24178028 </pubmed>

[[Category:Protein-coding genes]]

AccC

2015-03-06T10:20:45Z

Dtoedter: /* Biological materials */

* '''Description:''' acetyl-CoA carboxylase (biotin carboxylase subunit) 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''accC''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yqhX ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || acetyl-CoA carboxylase (biotin carboxylase subunit)
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || production of malonyl-CoA, the substrate for fatty acid biosynthesis
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24340 accC]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=AccC AccC]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=accC accC]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 49 kDa, 4.72
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1350 bp, 450 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yqhY]]'', ''[[accB]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24340 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24340 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24340 DNA_with_flanks]
|-
|-
|-
|colspan="2" | '''Genetic context''' [[Image:accC_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=accC_2530354_2531706_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:accC_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24340]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[biosynthesis of lipids]]}},
{{SubtiWiki category|[[essential genes]]}}

= This gene is a member of the following [[regulons]] =

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU24340

===Phenotypes of a mutant ===

essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24340&redirect=T BSU24340]

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/accBC-yqhY.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11384]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' ATP + biotin-carboxyl-carrier protein + CO2 = ADP + phosphate + carboxybiotin-carboxyl-carrier protein (according to Swiss-Prot)

* '''Protein family:'''

* '''Paralogous protein(s):''' [[YotE]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''
** ([[AccA]]-[[AccD]])-[[AccB]]-[[AccC]] (acetyl-CoA carboxylase complex)

* '''[[Localization]]:'''

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24340&redirect=T BSU24340]

* '''Structure:''' [http://www.rcsb.org/pdb/explore/explore.do?structureId=1BNC 1BNC] (the protein from ''E. coli'') {{PubMed|7915138}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/P49787 P49787]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24340]

* '''E.C. number:''' [http://www.expasy.org/enzyme/6.3.4.14 6.3.4.14], [http://www.expasy.org/enzyme/6.4.1.2 6.4.1.2]

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[accB]]-[[accC]]-[[yqhY]]'' {{PubMed|7592499}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=accC_2530354_2531706_-1 accC] {{PubMed|22383849}}

* '''[[Sigma factor]]:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 527 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 286 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 634 {{PubMed|21395229}}

=Biological materials =
* '''Mutant:'''
** GP1478 (chromosomal ''accC''-Strep fusion, ''aphA''3), purification from ''B. subtilis'', for [[SPINE]], available in [[Jörg Stülke]]'s lab'''

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab

* '''FLAG-tag construct:'''
** GP1483 (''spc'', based on [[pGP1331]]), available in [[Jörg Stülke]]'s lab

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=
==Reviews==
<pubmed> 15952903 12121720 15968460 </pubmed>
==Original Publications==
<pubmed>7592499, 7915138</pubmed>

[[Category:Protein-coding genes]]

YqhY

2015-03-06T10:00:10Z

Dtoedter: /* Biological materials */

* '''Description:''' unknown 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''yqhY''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no {{PubMed|24178028}}
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24330 yqhY]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=yqhY yqhY]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 14 kDa, 4.414
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 405 bp, 135 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[nusB]]'', ''[[accC]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24330 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24330 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24330 DNA_with_flanks]
|-
|-
|-
|colspan="2" | '''Genetic context''' [[Image:yqhY_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhY_2529926_2530333_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:yqhY_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24330]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[proteins of unknown function]]}}

= This gene is a member of the following [[regulons]] =

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU24330

===Phenotypes of a mutant ===

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24330&redirect=T BSU24330]

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/accBC-yqhY.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11709]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:''' asp23 family (according to Swiss-Prot)

* '''Paralogous protein(s):''' [[YloU]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''

* '''[[Localization]]:'''

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24330&redirect=T BSU24330]

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P54519 P54519]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24330]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[accB]]-[[accC]]-[[yqhY]]'' {{PubMed|7592499}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhY_2529926_2530333_-1 yqhY] {{PubMed|22383849}}

* '''[[Sigma factor]]:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''
** number of protein molecules per cell (minimal medium with glucose and ammonium): 127 {{PubMed|24696501}}
** number of protein molecules per cell (complex medium with amino acids, without glucose): 893 {{PubMed|24696501}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 4905 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 3644 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 4928 {{PubMed|21395229}}

=Biological materials =
* '''Mutant:'''
** GP1468 (''yqhY''::''erm''), available in [[Jörg Stülke]]'s lab {{PubMed|24178028}}
** GP1474 (chromosomal ''yqhY''-Strep fusion, ''aphA''3), purification from ''B. subtilis'', for [[SPINE]], available in [[Jörg Stülke]]'s lab'''

* '''Expression vector:'''
** pGP1322 (N-terminal Strep-tag, purification from ''E. coli'', in [[pGP172]]), available in [[Jörg Stülke]]'s lab
** pGP1325 (N-terminal His-tag, in [[pWH844]]), available in [[Jörg Stülke]]'s lab

* '''lacZ fusion:'''

* '''GFP fusion:'''
** GP1471 (spc, based on [[pBP43]]), available in [[Jörg Stülke]]'s lab

* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab

* '''FLAG-tag construct:'''
** GP1476 (''spc'', based on [[pGP1331]]), available in [[Jörg Stülke]]'s lab

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>17114254, 7592499 23420519 24178028 </pubmed>

[[Category:Protein-coding genes]]

YqhY

2015-03-06T09:59:40Z

Dtoedter: /* Biological materials */

* '''Description:''' unknown 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''yqhY''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no {{PubMed|24178028}}
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24330 yqhY]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=yqhY yqhY]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 14 kDa, 4.414
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 405 bp, 135 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[nusB]]'', ''[[accC]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24330 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24330 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24330 DNA_with_flanks]
|-
|-
|-
|colspan="2" | '''Genetic context''' [[Image:yqhY_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhY_2529926_2530333_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:yqhY_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24330]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[proteins of unknown function]]}}

= This gene is a member of the following [[regulons]] =

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU24330

===Phenotypes of a mutant ===

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24330&redirect=T BSU24330]

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/accBC-yqhY.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11709]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:''' asp23 family (according to Swiss-Prot)

* '''Paralogous protein(s):''' [[YloU]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''

* '''[[Localization]]:'''

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24330&redirect=T BSU24330]

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P54519 P54519]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24330]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[accB]]-[[accC]]-[[yqhY]]'' {{PubMed|7592499}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhY_2529926_2530333_-1 yqhY] {{PubMed|22383849}}

* '''[[Sigma factor]]:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''
** number of protein molecules per cell (minimal medium with glucose and ammonium): 127 {{PubMed|24696501}}
** number of protein molecules per cell (complex medium with amino acids, without glucose): 893 {{PubMed|24696501}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 4905 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 3644 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 4928 {{PubMed|21395229}}

=Biological materials =
* '''Mutant:'''
** GP1468 (''yqhY''::''erm''), available in [[Jörg Stülke]]'s lab {{PubMed|24178028}}
** GP1474 (chromosomal ''yqhY''-Strep fusion, ''aphA''3), purification from ''B. subtilis'', for [[SPINE]], available in [[Jörg Stülke]]'s lab'''

* '''Expression vector:'''

** pGP1322 (N-terminal Strep-tag, purification from ''E. coli'', in [[pGP172]]), available in [[Jörg Stülke]]'s lab
** pGP1325 (N-terminal His-tag, in [[pWH844]]), available in [[Jörg Stülke]]'s lab

* '''lacZ fusion:'''

* '''GFP fusion:'''
** GP1471 (spc, based on [[pBP43]]), available in [[Jörg Stülke]]'s lab

* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab

* '''FLAG-tag construct:'''
** GP1476 (''spc'', based on [[pGP1331]]), available in [[Jörg Stülke]]'s lab

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>17114254, 7592499 23420519 24178028 </pubmed>

[[Category:Protein-coding genes]]

AccB

2015-03-06T09:54:09Z

Dtoedter: /* Biological materials */

* '''Description:''' acetyl-CoA carboxylase (biotin carboxyl carrier subunit) 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''accB''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''fabE, yqhW ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || acetyl-CoA carboxylase (biotin carboxyl carrier subunit)
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || production of malonyl-CoA, the substrate for fatty acid biosynthesis
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24350 accB]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=AccB AccB]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=accB accB]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 17 kDa, 4.394
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 477 bp, 159 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[accC]]'', ''[[spoIIIAH]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24350 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24350 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24350 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:accB_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=accB_2531718_2532197_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:accB_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24350]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[biosynthesis of lipids]]}},
{{SubtiWiki category|[[essential genes]]}}

= This gene is a member of the following [[regulons]] =

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU24350

===Phenotypes of a mutant ===

essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24350&redirect=T BSU24350]

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/accBC-yqhY.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11383]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:'''

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''[[Cofactors]]:''' biotin

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''
** ([[AccA]]-[[AccD]])-[[AccB]]-[[AccC]] (acetyl-CoA carboxylase complex)

* '''[[Localization]]:'''

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24350&redirect=T BSU24350]

* '''Structure:''' [http://www.rcsb.org/pdb/explore/explore.do?structureId=1BDO 1BDO] (the protein from ''E. coli'') {{PubMed|8747466}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/P49786 P49786]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24350]

* '''E.C. number:''' [http://www.expasy.org/enzyme/6.4.1.2 6.4.1.2]

=== Additional information===

AccB binds to StrepTactin, and may be co-purified when purifying Strep-tagged proteins by [[SPINE]].

=Expression and regulation=

* '''Operon:''' ''[[accB]]-[[accC]]-[[yqhY]]'' {{PubMed|7592499}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=accB_2531718_2532197_-1 accB] {{PubMed|22383849}}

* '''Sigma factor:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 3355 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 889 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 28 {{PubMed|21395229}}

=Biological materials =
* '''Mutant:'''

* '''Expression vector:'''
** GP1477 (chromosomal ''accB''-Strep fusion, ''aphA''3), purification from ''B. subtilis'', for [[SPINE]], available in [[Jörg Stülke]]'s lab'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=
==Reviews==
<pubmed> 15952903 12121720 15968460 </pubmed>

==Original Publications==
<pubmed>7592499, 8747466, </pubmed>

[[Category:Protein-coding genes]]

DivIVA

2013-09-19T09:22:15Z

Dtoedter: /* Biological materials */

* '''Description:''' curvature sensitive membrane binding protein that recruits other proteins to the poles and the division septum, cell-division initiation protein (septum placement), part of the Min system (with [[MinC]], [[MinD]], [[MinJ]]), [[Noc]] and the Min system ensure the efficient utilization of the division site at midcell in by ensuring [[FtsZ|Z ring]] placement 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''divIVA''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ylmJ ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || cell-division initiation protein
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || septum placement
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU15420 divIVA]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/DivIVA DivIVA]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 19 kDa, 4.846
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 492 bp, 164 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ylmH]]'', ''[[ileS]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU15420 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU15420 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU15420 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:divIVA_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=divIVA_1612521_1613015_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:divIVA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU15420]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[cell division]]}},
{{SubtiWiki category|[[membrane proteins]]}},
{{SubtiWiki category|[[phosphoproteins]]}}

= This gene is a member of the following [[regulons]] =
{{SubtiWiki regulon|[[Spo0A regulon]]}}

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU15420

===Phenotypes of a mutant ===
Deletion of divIVA leads to filamentation and polar divisions that in turn cause a minicell phenotype. [http://www.ncbi.nlm.nih.gov/sites/entrez/9219999 PubMed] A divIVA mutant has a severe sporulation defect. [http://www.ncbi.nlm.nih.gov/sites/entrez/11445541 PubMed]

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/divIVA.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11835]

=== Additional information===
Filamentation is suppressed by mutations in minCD [http://www.ncbi.nlm.nih.gov/sites/entrez/9045828 PubMed].

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''
** curvature sensitive membrane binding protein that recruits other proteins to the poles and the division septum
** DivIVA is required for polar localisation of [[MinC]]-[[MinD]] via [[MinJ]]. [http://www.ncbi.nlm.nih.gov/sites/entrez/19019154 PubMed]
** It also recruits [[RacA]] to the distal pole of the prespore [http://www.ncbi.nlm.nih.gov/sites/entrez/12493822 PubMed].

* '''Protein family:''' gpsB family (according to Swiss-Prot)

* '''Paralogous protein(s):''' [[GpsB]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''
** the first 60 amino acids constitute a conserved lipid binding domain. [http://www.ncbi.nlm.nih.gov/sites/entrez/19478798 PubMed]
** the C-terminal domain is less conserved
** multimerisation involves two coiled-coil motifs, one in the lipid binding domain, and the other one being present in the helical C-terminal domain {{PubMed|18388125}} {{PubMed|23264578}}

* '''Modification:'''
** phosphorylated on Arg-102 {{PubMed|22517742}}
** The ''Mycobacterium'' DivIVA homologue Wag31 is phosphorylated at T73 [http://www.ncbi.nlm.nih.gov/sites/entrez/15985609 PubMed]
** DivIVA from ''Streptococcus pneumoniae'' is phosphorylated at Threonine 201 by the Ser/Thr protein kinase Sktp1. [http://www.ncbi.nlm.nih.gov/sites/entrez/20453092 PubMed][http://www.ncbi.nlm.nih.gov/sites/entrez/22211696 PubMed]

* '''Cofactor(s):''' not known

* '''Effectors of protein activity:''' not known

* '''[[SubtInteract|Interactions]]:'''
** ([[MinC]]-[[MinD]])-[[MinJ]]-[[DivIVA]] {{PubMed|20352045}}, [[MinJ]] binds to the N-terminal lipid-binding domain of [[DivIVA]] {{PubMed|23264578}}
** [[DivIVA]]-[[RacA]], [[RacA]] binds to the C-terminal domain of [[DivIVA]] {{PubMed|23264578}}
** [[DivIVA]]-[[DivIVA]] {{PubMed|23264578}}
** [[Maf]]-[[DivIVA]] {{PubMed|21564336}}
** [[DivIVA]]-[[ComN]] {{PubMed|22582279}}

* '''[[Localization]]:'''
** DivIVA forms a ring underneath the invaginating membrane at the site of cell division and is enriched at both cell poles [http://www.ncbi.nlm.nih.gov/sites/entrez/9219999 PubMed].
** forms rings at the division septum and patches at the cell poles {{PubMed|22108385}}

=== Database entries ===

* '''Structure:''' [http://www.pdb.org/pdb/explore/explore.do?structureId=2WUJ 2WUJ] (N-terminal domain) {{PubMed|20502438}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/P71021 P71021]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU15420]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''divIVA'' [http://www.ncbi.nlm.nih.gov/sites/entrez/16420366 PubMed]

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=divIVA_1612521_1613015_1 divIVA] {{PubMed|22383849}}

* '''[[Sigma factor]]:'''

* '''Regulation:'''
** repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]
** constitutively expressed {{PubMed|23701187}}

* '''Regulatory mechanism:'''
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/14651647 PubMed]

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' divIVA::tet available from the [http://subtiwiki.uni-goettingen.de/wiki/index.php/Leendert_Hamoen Hamoen] Lab
** 4041 (''divIVA''::''tet''), available in [[Jörg Stülke]]'s lab and Sven Halbedel 's lab

* '''Expression vector:''' DivIVA-Strep available [http://www.rki.de/DE/Content/Institut/OrgEinheiten/Abt1/FG11/AG_LM.html here]

* '''lacZ fusion:'''

* '''GFP fusion:''' divIVA-gfp fusions available from the [http://subtiwiki.uni-goettingen.de/wiki/index.php/Leendert_Hamoen Hamoen] Lab

* '''two-hybrid system:'''

* '''Antibody:'''

=Labs working on this gene/protein=

[[Leendert Hamoen]], Centre for Bacterial Cell Biology, Newcastle upon Tyne, United Kingdom [http://www.ncl.ac.uk/camb/staff/profile/l.hamoen]

[[Imrich Barak]], Slovak Academy of Science, Bratislava, Slovakia [http://imb.savba.sk/~barak/ homepage]

[[Sven Halbedel]], Robert Koch Institute [http://www.rki.de/DE/Content/Institut/OrgEinheiten/Abt1/FG11/AG_LM.html homepage]

=Your additional remarks=

=References=
==Reviews==
<pubmed> 19654604, 19884039 22722244 </pubmed>

==Original Publications==
<pubmed>22582279, 19654604, 19666580,9219999,19019154,15554965, 12368265,11445541,10835369,12511520,14651647, 19478798 ,19429628, 11445541, 9219999, 9045828 20352045 20502438 11886553 21564336 22108385 22457634 22517742 22661688 23264578 23701187 23927765 </pubmed>
[[Category:Protein-coding genes]]

YlaN

2013-09-19T09:19:28Z

Dtoedter: /* Biological materials */

* '''Description:''' unknown 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''ylaN''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU14840 ylaN]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 10 kDa, 4.615
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 279 bp, 93 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ylaM]]'', ''[[ftsW]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU14840 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU14840 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU14840 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:ylaN_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ylaN_1552412_1552693_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:ylaN_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU14840]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[essential genes]]}},
{{SubtiWiki category|[[proteins of unknown function]]}}

= This gene is a member of the following [[regulons]] =

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU14840

===Phenotypes of a mutant ===

essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]

=== Database entries ===

* '''DBTBS entry:''' no entry

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13351]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:''' UPF0358 family (according to Swiss-Prot)

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''

* '''[[Localization]]:'''

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore/explore.do?structureId=2ODM 2ODM] {{PubMed|17469204}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/O07638 O07638]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU14840]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[ylaN]]'' {{PubMed|22383849}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ylaN_1552412_1552693_1 ylaN] {{PubMed|22383849}}

* '''[[Sigma factor]]:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''

* '''Expression vector:'''
** IPTG inducible expression of Strep-''ylaN'' in ''E. coli'': pGP2579 (in [[pGP172]]), available in [[Jörg Stülke]]'s lab
** IPTG inducible expression of His-''ylaN'' in ''E. coli'': pGP2583 (in [[pWH844]]), available in [[Jörg Stülke]]'s lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab

* '''Antibody:''' available in [[Jörg Stülke]]'s lab

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>17005971 17469204 22383849 22383849 23420519 </pubmed>

[[Category:Protein-coding genes]]

YloV

2013-09-19T09:18:38Z

Dtoedter: /* Biological materials */

* '''Description:''' unknown 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''yloV''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU15840 yloV]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 59 kDa, 4.282
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1659 bp, 553 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yloU]]'', ''[[sdaAB]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU15840 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU15840 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU15840 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:yloV_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yloV_1656442_1658103_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:yloV_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU15840]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[proteins of unknown function]]}},
{{SubtiWiki category|[[phosphoproteins]]}}

= This gene is a member of the following [[regulons]] =

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU15840

===Phenotypes of a mutant ===

=== Database entries ===

* '''DBTBS entry:''' no entry

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13396]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:'''

* '''Paralogous protein(s):'''

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''
** phosphorylated on Arg-255 {{PubMed|22517742}}

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''

* '''[[Localization]]:'''

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/O34751 O34751]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU15840]

* '''E.C. number:'''

=== Additional information===

* subject to Clp-dependent proteolysis upon glucose starvation {{PubMed|17981983}}

=Expression and regulation=

* '''Operon:''' ''[[yloU]]-[[yloV]]'' {{PubMed|22383849}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yloV_1656442_1658103_1 yloV] {{PubMed|22383849}}

* '''[[Sigma factor]]:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:''' subject to Clp-dependent proteolysis upon glucose starvation {{PubMed|17981983}}

=Biological materials =

* '''Mutant:'''
** GP1466 (''yloV''::''cat''), available in [[Jörg Stülke]]'s lab
** GP1467 (''[[yloU]] - yloV''::''cat''), available in [[Jörg Stülke]]'s lab

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

* '''two-hybrid system:'''

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=
<pubmed>22383849 17981983 22517742</pubmed>
[[Category:Protein-coding genes]]

YloU

2013-09-19T09:15:33Z

Dtoedter: /* Biological materials */

* '''Description:''' similar to alkaline-shock protein 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''yloU''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/17114254 PubMed]
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU15830 yloU]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 13 kDa, 7.077
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 360 bp, 120 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rpmB]]'', ''[[yloV]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU15830 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU15830 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU15830 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:yloU_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yloU_1656064_1656426_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:yloU_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU15830]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[proteins of unknown function]]}},
{{SubtiWiki category|[[essential genes]]}}

= This gene is a member of the following [[regulons]] =

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU15830

===Phenotypes of a mutant ===

essential [http://www.ncbi.nlm.nih.gov/pubmed/17114254 PubMed]

=== Database entries ===

* '''DBTBS entry:''' no entry

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13395]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:''' asp23 family (according to Swiss-Prot)

* '''Paralogous protein(s):''' [[YqhY]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''

* '''[[Localization]]:'''

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/O34318 O34318]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU15830]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[yloU]]-[[yloV]]'' {{PubMed|22383849}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yloU_1656064_1656426_1 yloU] {{PubMed|22383849}}

* '''[[Sigma factor]]:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:
** GP1465 (''yloU''::''cat''), available in [[Jörg Stülke]]'s lab
** GP1467 (''yloU - [[yloV]]''::''cat''), available in [[Jörg Stülke]]'s lab

* '''Expression vector:'''
** GP1476 (chromosomal ''yloU''-Strep fusion, ''aphA''3), purification from ''B. subtilis'', for [[SPINE]], available in [[Jörg Stülke]]'s lab'''
** pGP1323 (N-terminal Strep-tag, purification from ''E. coli'', in [[pGP172]]), available in [[Jörg Stülke]]'s lab
** pGP1324 (N-terminal His-tag, in [[pWH844]]), available in [[Jörg Stülke]]'s lab

* '''lacZ fusion:'''

* '''GFP fusion:'''
** pBP43-yloU-Gfp, available in [[Jörg Stülke]]'s lab

* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>17114254, 22383849 23420519 </pubmed>

[[Category:Protein-coding genes]]

YloU

2013-09-19T09:15:13Z

Dtoedter: /* Biological materials */

YqhY

2013-09-19T09:04:22Z

Dtoedter: /* Biological materials */

* '''Description:''' unknown 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''yqhY''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/17114254 PubMed]
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24330 yqhY]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/fatty_acid_synthesis.html Lipid synthesis]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 14 kDa, 4.414
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 405 bp, 135 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[nusB]]'', ''[[accC]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24330 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24330 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24330 DNA_with_flanks]
|-
|-
|-
|colspan="2" | '''Genetic context''' [[Image:yqhY_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhY_2529926_2530333_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:yqhY_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24330]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[proteins of unknown function]]}},
{{SubtiWiki category|[[essential genes]]}}

= This gene is a member of the following [[regulons]] =

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU24330

===Phenotypes of a mutant ===

essential [http://www.ncbi.nlm.nih.gov/pubmed/17114254 PubMed]

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/accBC-yqhY.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11709]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:''' asp23 family (according to Swiss-Prot)

* '''Paralogous protein(s):''' [[YloU]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''

* '''[[Localization]]:'''

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P54519 P54519]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24330]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[accB]]-[[accC]]-[[yqhY]]'' {{PubMed|7592499}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhY_2529926_2530333_-1 yqhY] {{PubMed|22383849}}

* '''[[Sigma factor]]:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''
** GP1468 (''yqhY''::''erm''), available in [[Jörg Stülke]]'s lab

* '''Expression vector:'''
** GP1474 (chromosomal ''yqhY''-Strep fusion, ''aphA''3), purification from ''B. subtilis'', for [[SPINE]], available in [[Jörg Stülke]]'s lab'''
** pGP1322 (N-terminal Strep-tag, purification from ''E. coli'', in [[pGP172]]), available in [[Jörg Stülke]]'s lab
** pGP1325 (N-terminal His-tag, in [[pWH844]]), available in [[Jörg Stülke]]'s lab

* '''lacZ fusion:'''

* '''GFP fusion:'''
** pBP43-yqhY-Gfp, available in [[Jörg Stülke]]'s lab

* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab

* '''FLAG-tag construct:'''
** GP1476 (''spc'' ''aphA''3, based on [[pGP1331]]), available in [[Jörg Stülke]]'s lab

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>17114254, 7592499 23420519 </pubmed>

[[Category:Protein-coding genes]]

YqhY

2013-09-19T09:00:45Z

Dtoedter: /* Biological materials */

* '''Description:''' unknown 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''yqhY''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/17114254 PubMed]
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24330 yqhY]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/fatty_acid_synthesis.html Lipid synthesis]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 14 kDa, 4.414
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 405 bp, 135 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[nusB]]'', ''[[accC]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24330 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24330 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24330 DNA_with_flanks]
|-
|-
|-
|colspan="2" | '''Genetic context''' [[Image:yqhY_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhY_2529926_2530333_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:yqhY_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24330]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[proteins of unknown function]]}},
{{SubtiWiki category|[[essential genes]]}}

= This gene is a member of the following [[regulons]] =

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU24330

===Phenotypes of a mutant ===

essential [http://www.ncbi.nlm.nih.gov/pubmed/17114254 PubMed]

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/accBC-yqhY.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11709]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:'''

* '''Protein family:''' asp23 family (according to Swiss-Prot)

* '''Paralogous protein(s):''' [[YloU]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):'''

* '''Effectors of protein activity:'''

* '''[[SubtInteract|Interactions]]:'''

* '''[[Localization]]:'''

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P54519 P54519]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24330]

* '''E.C. number:'''

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[accB]]-[[accC]]-[[yqhY]]'' {{PubMed|7592499}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yqhY_2529926_2530333_-1 yqhY] {{PubMed|22383849}}

* '''[[Sigma factor]]:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''
** GP1468 (''yqhY''::''erm''), available in [[Jörg Stülke]]'s lab

* '''Expression vector:'''
** GP1474 (chromosomal ''yqhY''-Strep fusion, ''aphA''3), purification from ''B. subtilis'', for [[SPINE]], available in [[Jörg Stülke]]'s lab'''
** pGP1322 (N-terminal Strep-tag, purification from ''E. coli'', in [[pGP172]]), available in [[Jörg Stülke]]'s lab
** pGP1325 (N-terminal His-tag, in [[pWH844]]), available in [[Jörg Stülke]]'s lab

* '''lacZ fusion:'''

* '''GFP fusion:'''
** pBP43-Gfp-yqhY, available in [[Jörg Stülke]]'s lab

* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab

* '''FLAG-tag construct:'''
** GP1476 (''spc'' ''aphA''3, based on [[pGP1331]]), available in [[Jörg Stülke]]'s lab

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>17114254, 7592499 23420519 </pubmed>

[[Category:Protein-coding genes]]