SubtiWiki - User contributions [en]

DarA

2014-03-14T09:31:25Z

Jkampf: /* Biological materials */

* '''Description:''' unknown 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''yaaQ''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' ||
|-
|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=BSU00290 yaaQ]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 11 kDa, 6.088
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 327 bp, 109 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[tmk]]'', ''[[yaaR]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU00290 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU00290 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU00290 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:yaaQ_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=yaaQ_39871_40200_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:yaaQ_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU00290]]
|-
|}

__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:''' BSU00290

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10093]

=== 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:'''

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

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

* '''[[SubtInteract|Interactions]]:'''
** forms homo-trimers (see [http://www.pdb.org/pdb/explore/explore.do?structureId=3m05 3M05])

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

=== Database entries ===

* '''Structure:'''
** [http://www.pdb.org/pdb/explore/explore.do?structureId=3m05 3M05] (the protein from ''Pediococcus pentosaceus'', 50% identity)

* '''UniProt:''' [http://www.uniprot.org/uniprot/P37538 P37538]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU00290]

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

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[yaaQ]]-[[yaaR]]-[[holB]]-[[yaaT]]-[[yabA]]-[[yabB]]-[[yazA]]-[[yabC]]'' {{PubMed|22383849}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yaaQ_39871_40200_1 yaaQ] {{PubMed|22383849}}

* '''Sigma factor:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''
** GP1712 (''yaaQ''::''cat''), available in [[Jörg Stülke]]'s lab
** GP1713 (''yaaQ-R''::''cat''), available in [[Jörg Stülke]]'s lab

* '''Expression vector:'''
**pGP2601: (IPTG inducible expression, purification in ''E. coli'' with N-terminal His-tag, in [[pWH844]]), available in [[Jörg Stülke]]'s lab

**pGP2603: expression of ''yaaQ''-Strep by [[pGP382]] in ''B. subtilis'' suitable for [[SPINE]], available in [[Jörg Stülke]]'s lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

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

DarA

2014-03-14T09:28:38Z

Jkampf: /* Biological materials */

* '''Description:''' unknown 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''yaaQ''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' ||
|-
|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=BSU00290 yaaQ]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 11 kDa, 6.088
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 327 bp, 109 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[tmk]]'', ''[[yaaR]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU00290 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU00290 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU00290 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:yaaQ_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=yaaQ_39871_40200_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:yaaQ_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU00290]]
|-
|}

__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:''' BSU00290

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10093]

=== 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:'''

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

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

* '''[[SubtInteract|Interactions]]:'''
** forms homo-trimers (see [http://www.pdb.org/pdb/explore/explore.do?structureId=3m05 3M05])

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

=== Database entries ===

* '''Structure:'''
** [http://www.pdb.org/pdb/explore/explore.do?structureId=3m05 3M05] (the protein from ''Pediococcus pentosaceus'', 50% identity)

* '''UniProt:''' [http://www.uniprot.org/uniprot/P37538 P37538]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU00290]

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

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[yaaQ]]-[[yaaR]]-[[holB]]-[[yaaT]]-[[yabA]]-[[yabB]]-[[yazA]]-[[yabC]]'' {{PubMed|22383849}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yaaQ_39871_40200_1 yaaQ] {{PubMed|22383849}}

* '''Sigma factor:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''
** GP1712 (''yaaQ''::''cat''), available in [[Jörg Stülke]]'s lab
** GP1713 (''yaaQ-R''::''cat''), available in [[Jörg Stülke]]'s lab

* '''Expression vector:'''
**pGP2601: (IPTG inducible expression, purification in ''E. coli'' with N-terminal His-tag, in [[pWH844]]), available in [[Jörg Stülke]]'s lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

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

MurAA

2014-03-14T09:26:43Z

Jkampf: /* Biological materials */

* '''Description:''' UDP-N-acetylglucosamine 1-carboxyvinyltransferase 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''murAA''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''murA ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || UDP-N-acetylglucosamine 1-carboxyvinyltransferase
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || peptidoglycan precursor 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=BSU36760 murAA]
|-
|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=murAA murAA]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 46 kDa, 5.45
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1308 bp, 436 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[spoIID]]'', ''[[ywmB]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU36760 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU36760 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU36760 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:murAA_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=murAA_3777949_3779259_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:murAA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU36760]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[cell wall synthesis]]}},
{{SubtiWiki category|[[biosynthesis of cell wall components]]}},
{{SubtiWiki category|[[essential genes]]}}

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU36760

===Phenotypes of a mutant ===

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

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11955]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' Phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine = phosphate + UDP-N-acetyl-3-O-(1-carboxyvinyl)-D-glucosamine (according to Swiss-Prot)

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

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

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

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

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

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

* '''[[Localization]]:''' cytoplasm (according to Swiss-Prot)

=== Database entries ===

* '''Structure:''' [http://www.pdb.org/pdb/explore/explore.do?structureId=3SG1 3SG1] (from ''B. anthracis'', 79% identity, 94% similarity)

* '''UniProt:''' [http://www.uniprot.org/uniprot/P70965 P70965]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU36760]

* '''E.C. number:''' [http://www.expasy.org/enzyme/2.5.1.7 2.5.1.7]

=== Additional information===

:* [[MurAA]] is subject to [[ClpC]]-[[ClpP]]-dependent degradation upon glucose starvation {{PubMed|14763982,17981983}}

=Expression and regulation=

* '''Operon:''' ''[[murAA]]'' {{PubMed|9353933}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=murAA_3777949_3779259_-1 murAA] {{PubMed|22383849}}

* '''Sigma factor:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

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

=Biological materials =

* '''Mutant:'''

* '''Expression vector:'''
** pRSETA-murAA, Expression of His(6)-MurAA, avalable in [[Ulf Gerth]]'s lab {{PubMed|14763982}}
**pGP2597: (IPTG inducible expression, purification in ''E. coli'' with N-terminal Strep-tag, in [[pGP172]]), available in [[Jörg Stülke]]'s lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:''' avalable in [[Ulf Gerth]]'s lab {{PubMed|14763982}}

=Labs working on this gene/protein=

=Your additional remarks=

=References=
== Reviews ==
<pubmed> 21822642 </pubmed>
== Original publications ==
<pubmed>14763982,18063720, 19899805,14763982, 8994972 9485407 </pubmed>

[[Category:Protein-coding genes]]

GcaD

2014-03-14T09:24:59Z

Jkampf: /* Biological materials */

* '''Description:''' bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''gcaD''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''tms, tms26 ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || bifunctional N-acetylglucosamine-1-phosphate
uridyltransferase/glucosamine-1-phosphate acetyltransferase
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || cell wall metabolism
|-
|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=BSU00500 gcaD]
|-
|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=gcaD gcaD]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 49 kDa, 5.65
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1368 bp, 456 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[spoVG]]'', ''[[prs]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU00500 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU00500 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU00500 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:gcaD_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=gcaD_56352_57722_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:gcaD_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU00500]]
|-
|}

__TOC__
 
 
 
 
 

 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[cell wall synthesis]]}},
{{SubtiWiki category|[[biosynthesis of cell wall components]]}},
{{SubtiWiki category|[[essential genes]]}}

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU00500

===Phenotypes of a mutant ===

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

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/gcaD-prs-ctc.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10113]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' Acetyl-CoA + alpha-D-glucosamine 1-phosphate = CoA + N-acetyl-alpha-D-glucosamine 1-phosphate (according to Swiss-Prot)

* '''Protein family:'''

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

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

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

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

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

* '''[[Localization]]:'''
** cytoplasm (according to Swiss-Prot)

=== Database entries ===

* '''Structure:''' [http://www.pdb.org/pdb/explore/explore.do?structureId=1hm9 1HM9] (from ''Streptococcus pneumoniae'', 49% identity) {{PubMed|11118459}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/P14192 P14192]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU00500]

* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.7.23 2.7.7.23]

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[gcaD]]-[[prs]]-[[ctc]]'' [http://www.ncbi.nlm.nih.gov/pubmed/8522540 PubMed]

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=gcaD_56352_57722_1 gcaD] {{PubMed|22383849}}

* '''Sigma factor:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/pubmed/8522540 PubMed]

* '''Regulation:'''
** [[RelA]] dependent downregulation (Class I) during stringent response {{PubMed|11948165}}

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''

* '''Expression vector:'''
**pGP2596: (IPTG inducible expression, purification in ''E. coli'' with N-terminal His-tag, in [[pWH844]]), available in [[Jörg Stülke]]'s lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=
<pubmed>1328164,8522540, 11118459, 21303765</pubmed>

[[Category:Protein-coding genes]]

KtrA

2014-03-14T09:24:22Z

Jkampf: /* Biological materials */

* '''Description:''' high affinity potassium transporter [[KtrA]]-[[KtrB]], peripheric membrane component (proton symport) 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''ktrA''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yuaA''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || high affinity potassium transporter [[KtrA]]-[[KtrB]], peripheric membrane component (proton symport)
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || potassium uptake
|-
|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=BSU31090 ktrA]
|-
|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=KtrA KtrA]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://cellpublisher.gobics.de/view/GqbblRJkBH Metal ion homeostasis], [http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=ktrA ktrA]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 24 kDa, 5.981
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 666 bp, 222 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[bslA]]'', ''[[ktrB]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU31090 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU31090 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU31090 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:yuaA_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=ktrA_3188414_3189082_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:ktrA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU31090]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[transporters/ other]]}},
{{SubtiWiki category|[[metal ion homeostasis (K, Na, Ca, Mg)]]}},
{{SubtiWiki category|[[coping with hyper-osmotic stress]]}},
{{SubtiWiki category|[[membrane proteins]]}}

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU31090

===Phenotypes of a mutant ===
* The ''[[ktrA]]-[[ktrB]]'' mutant of ''B. subtilis'' NCIB3610 is reduced in sliding (dendritic spreading) {{PubMed|16321950}}

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13943]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

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

* '''Protein family:'''

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

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''[[Domains]]:'''
** contains a [[RCK_N domain]] at the N-terminus (according to UniProt, [http://www.uniprot.org/uniprot/?query=domain:%22RCK+N-terminal+domain*%22])
** contains a c-di-AMP-binding [[RCK_C domain]] at the C-terminus (according to UniProt, [http://www.uniprot.org/uniprot/?query=domain:%22RCK+C-terminal+domain*%22]) {{PubMed|23671116}}

* '''Modification:'''

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

* '''Effectors of protein activity:'''
** the protein binds c-di-AMP {{PubMed|23671116}}

* '''[[SubtInteract|Interactions]]:'''
** [[KtrA]]-[[KtrB]] [http://www.ncbi.nlm.nih.gov/sites/entrez/12562800 PubMed], composed of an octameric [[KtrA]] ring and two [[KtrB]] dimers {{PubMed|23598340}}

* '''[[Localization]]:''' peripheral membrane protein {{PubMed|12562800}}

=== Database entries ===

* '''Structure:'''
** [http://www.rcsb.org/pdb/explore.do?structureId=1LSU 1LSU] (complex with NADH)
** [http://www.proteopedia.org/wiki/index.php/2hmw 2HMW] ( complex with ATP)
** [http://www.pdb.org/pdb/explore/explore.do?structureId=4J7C 4J7C] (the [[KtrA]]-[[KtrB]] complex) {{PubMed|23598340}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/O32080 O32080]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU31090]

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

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[ktrA]]-[[ktrB]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/12562800 PubMed]

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ktrA_3188414_3189082_1 ktrA] {{PubMed|22383849}}

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

* '''Regulation:'''

* '''Regulatory mechanism:'''
** expression is controlled via termination antitermination by the [[ydaO riboswitch]], expression is switched off upon binding of c-di-AMP {{PubMed|24141192,20511502}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''
** 1A954 ( ''ktrA''::''kan''), {{PubMed|12562800}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A954&Search=1A954 BGSC]
** GHB1 (D(''[[ktrA]]-[[ktrB]]'')::''aphA3''), available in [[Erhard Bremer]]'s lab
** GP92 (D(''[[ktrA]]-[[ktrB]]'')::''aphA3''), available in [[Jörg Stülke]]'s lab

* '''Expression vector:'''
**pGP2594: (IPTG inducible expression, purification in ''E. coli'' with N-terminal His-tag, in [[pWH844]]), available in [[Jörg Stülke]]'s lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

[[Erhard Bremer]], University of Marburg, Germany [http://www.uni-marburg.de/fb17/fachgebiete/mikrobio/molmibi homepage]

=Your additional remarks=

=References=

<pubmed>12562800,15096624,16321950, 20511502, 23086297 23598340 23671116 16990138 24141192</pubmed>

[[Category:Protein-coding genes]]

MurAB

2014-03-14T09:23:37Z

Jkampf: /* Biological materials */

* '''Description:''' UDP-N-acetylglucosamine 1-carboxyvinyltransferase 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''murAB''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''murZ, lssF, rev-4 ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || UDP-N-acetylglucosamine 1-carboxyvinyltransferase
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || peptidoglycan precursor 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=BSU37100 murAB]
|-
|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=murAB murAB]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 45 kDa, 5.831
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1287 bp, 429 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[glpX]]'', ''[[ywjH]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU37100 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU37100 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU37100 DNA_with_flanks]
|-
|-
|-
|colspan="2" | '''Genetic context''' [[Image:murAB_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=murAB_3806086_3807375_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:murAB_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU37100]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[cell wall synthesis]]}},
{{SubtiWiki category|[[biosynthesis of cell wall components]]}}

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU37100

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10414]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' Phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine = phosphate + UDP-N-acetyl-3-O-(1-carboxyvinyl)-D-glucosamine (according to Swiss-Prot)

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

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

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

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

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

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

* '''[[Localization]]:''' cytoplasm (according to Swiss-Prot)

=== Database entries ===

* '''Structure:''' [http://www.pdb.org/pdb/explore/explore.do?structureId=3SG1 3SG1] (from ''B. anthracis'', 50% identity, 81% similarity)

* '''UniProt:''' [http://www.uniprot.org/uniprot/P19670 P19670]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU37100]

* '''E.C. number:''' [http://www.expasy.org/enzyme/2.5.1.7 2.5.1.7]

=== Additional information===

=Expression and regulation=

* '''Operon:''''' [[murAB]]-[[glpX]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/19270101 PubMed]

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=murAB_3806086_3807375_-1 murAB] {{PubMed|22383849}}

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

* '''Regulation:''' constitutive [http://www.ncbi.nlm.nih.gov/sites/entrez/19270101 PubMed]

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''

* '''Expression vector:'''
**pGP2595: (IPTG inducible expression, purification in ''E. coli'' with N-terminal His-tag, in [[pWH844]]), available in [[Jörg Stülke]]'s lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=
== Reviews ==
<pubmed> 21822642 </pubmed>
== Original publications ==
<pubmed>19270101 </pubmed>
[[Category:Protein-coding genes]]

KtrA

2014-03-14T09:20:21Z

Jkampf: /* Biological materials */

* '''Description:''' high affinity potassium transporter [[KtrA]]-[[KtrB]], peripheric membrane component (proton symport) 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''ktrA''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yuaA''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || high affinity potassium transporter [[KtrA]]-[[KtrB]], peripheric membrane component (proton symport)
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || potassium uptake
|-
|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=BSU31090 ktrA]
|-
|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=KtrA KtrA]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://cellpublisher.gobics.de/view/GqbblRJkBH Metal ion homeostasis], [http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=ktrA ktrA]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 24 kDa, 5.981
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 666 bp, 222 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[bslA]]'', ''[[ktrB]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU31090 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU31090 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU31090 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:yuaA_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=ktrA_3188414_3189082_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:ktrA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU31090]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[transporters/ other]]}},
{{SubtiWiki category|[[metal ion homeostasis (K, Na, Ca, Mg)]]}},
{{SubtiWiki category|[[coping with hyper-osmotic stress]]}},
{{SubtiWiki category|[[membrane proteins]]}}

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU31090

===Phenotypes of a mutant ===
* The ''[[ktrA]]-[[ktrB]]'' mutant of ''B. subtilis'' NCIB3610 is reduced in sliding (dendritic spreading) {{PubMed|16321950}}

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13943]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

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

* '''Protein family:'''

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

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''[[Domains]]:'''
** contains a [[RCK_N domain]] at the N-terminus (according to UniProt, [http://www.uniprot.org/uniprot/?query=domain:%22RCK+N-terminal+domain*%22])
** contains a c-di-AMP-binding [[RCK_C domain]] at the C-terminus (according to UniProt, [http://www.uniprot.org/uniprot/?query=domain:%22RCK+C-terminal+domain*%22]) {{PubMed|23671116}}

* '''Modification:'''

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

* '''Effectors of protein activity:'''
** the protein binds c-di-AMP {{PubMed|23671116}}

* '''[[SubtInteract|Interactions]]:'''
** [[KtrA]]-[[KtrB]] [http://www.ncbi.nlm.nih.gov/sites/entrez/12562800 PubMed], composed of an octameric [[KtrA]] ring and two [[KtrB]] dimers {{PubMed|23598340}}

* '''[[Localization]]:''' peripheral membrane protein {{PubMed|12562800}}

=== Database entries ===

* '''Structure:'''
** [http://www.rcsb.org/pdb/explore.do?structureId=1LSU 1LSU] (complex with NADH)
** [http://www.proteopedia.org/wiki/index.php/2hmw 2HMW] ( complex with ATP)
** [http://www.pdb.org/pdb/explore/explore.do?structureId=4J7C 4J7C] (the [[KtrA]]-[[KtrB]] complex) {{PubMed|23598340}}

* '''UniProt:''' [http://www.uniprot.org/uniprot/O32080 O32080]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU31090]

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

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[ktrA]]-[[ktrB]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/12562800 PubMed]

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ktrA_3188414_3189082_1 ktrA] {{PubMed|22383849}}

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

* '''Regulation:'''

* '''Regulatory mechanism:'''
** expression is controlled via termination antitermination by the [[ydaO riboswitch]], expression is switched off upon binding of c-di-AMP {{PubMed|24141192,20511502}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''
** 1A954 ( ''ktrA''::''kan''), {{PubMed|12562800}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A954&Search=1A954 BGSC]
** GHB1 (D(''[[ktrA]]-[[ktrB]]'')::''aphA3''), available in [[Erhard Bremer]]'s lab
** GP92 (D(''[[ktrA]]-[[ktrB]]'')::''aphA3''), available in [[Jörg Stülke]]'s lab

* '''Expression vector:'''
**pGP2594: (expression, purification in ''E. coli'' with N-terminal His-tag, in [[pWH844]]), available in [[Jörg Stülke]]'s lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

[[Erhard Bremer]], University of Marburg, Germany [http://www.uni-marburg.de/fb17/fachgebiete/mikrobio/molmibi homepage]

=Your additional remarks=

=References=

<pubmed>12562800,15096624,16321950, 20511502, 23086297 23598340 23671116 16990138 24141192</pubmed>

[[Category:Protein-coding genes]]

YfmO

2014-03-14T09:14:45Z

Jkampf: /* Biological materials */

* '''Description:''' similar to multidrug-efflux transporter 
{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''yfmO''
|-
|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=BSU07400 yfmO]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 41 kDa, 9.894
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1188 bp, 396 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yfmP]]'', ''[[yfmN]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07400 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07400 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07400 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:yfmO_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=yfmO_812628_813818_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:yfmO_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07400]]
|-
|}

__TOC__
 
 
 
 
 

 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[transporters/ other]]}},
{{SubtiWiki category|[[resistance against toxins/ antibiotics]]}},
{{SubtiWiki category|[[membrane proteins]]}}

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU07400

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12966]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

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

* '''Protein family:''' major facilitator superfamily (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]]:'''
** cell membrane (according to Swiss-Prot)

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/O06473 O06473]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU07400]

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

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[yfmP]]-[[yfmO]]'' {{PubMed|14663075}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yfmO_812628_813818_1 yfmO] {{PubMed|22383849}}

* '''Sigma factor:''' [[SigA]] {{PubMed|14663075}}

* '''Regulation:'''

* '''Regulatory mechanism:''' [[YfmP]]: transcription repression {{PubMed|14663075}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''
** GP1716 (''yfmO''::''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>14663075,, </pubmed>

[[Category:Protein-coding genes]]

DarA

2014-03-14T09:13:47Z

Jkampf: /* Biological materials */

* '''Description:''' unknown 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''yaaQ''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' ||
|-
|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=BSU00290 yaaQ]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 11 kDa, 6.088
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 327 bp, 109 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[tmk]]'', ''[[yaaR]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU00290 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU00290 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU00290 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:yaaQ_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=yaaQ_39871_40200_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:yaaQ_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU00290]]
|-
|}

__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:''' BSU00290

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10093]

=== 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:'''

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

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

* '''[[SubtInteract|Interactions]]:'''
** forms homo-trimers (see [http://www.pdb.org/pdb/explore/explore.do?structureId=3m05 3M05])

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

=== Database entries ===

* '''Structure:'''
** [http://www.pdb.org/pdb/explore/explore.do?structureId=3m05 3M05] (the protein from ''Pediococcus pentosaceus'', 50% identity)

* '''UniProt:''' [http://www.uniprot.org/uniprot/P37538 P37538]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU00290]

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

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[yaaQ]]-[[yaaR]]-[[holB]]-[[yaaT]]-[[yabA]]-[[yabB]]-[[yazA]]-[[yabC]]'' {{PubMed|22383849}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yaaQ_39871_40200_1 yaaQ] {{PubMed|22383849}}

* '''Sigma factor:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''
** GP1712 (''yaaQ''::''cat''), available in [[Jörg Stülke]]'s lab
** GP1713 (''yaaQ-R''::''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</pubmed>
[[Category:Protein-coding genes]]

LmrB

2014-03-14T09:11:26Z

Jkampf: /* Biological materials */

* '''Description:''' lincomycin-resistance protein (multidrug resistance pump) 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''lmrB''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yccA ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || lincomycin-resistance protein
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || resistance to lincomycin
|-
|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=BSU02670 lmrB]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 51 kDa, 9.703
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1437 bp, 479 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ycbU]]'', ''[[lmrA]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU02670 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU02670 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU02670 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:lmrB_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=lmrB_288653_290092_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:lmrB_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU02670]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[transporters/ other]]}},
{{SubtiWiki category|[[resistance against toxins/ antibiotics]]}},
{{SubtiWiki category|[[membrane proteins]]}}

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU02670

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12613]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

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

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

* '''Paralogous protein(s):''' [[YcnB]], [[YhcA]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

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

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

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

* '''[[Localization]]:'''
** cell membrane (according to Swiss-Prot)

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/O35018 O35018]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU02670]

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

=== Additional information===

=Expression and regulation=
* '''Operon:''' ''[[lmrA]]-[[lmrB]]'' {{PubMed|15317768}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=lmrB_288653_290092_-1 lmrB] {{PubMed|22383849}}

* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|12499232}}

* '''Regulation:'''
** induced by flavonoids such as quercetin ([[LmrA]]){{PubMed|17483215}}

* '''Regulatory mechanism:'''
** [[LmrA]]: transcription repression {{PubMed|15317768}}

* '''Additional information:'''
** the mRNA is substantially stabilized upon depletion of [[Rny|RNase Y]] {{PubMed|21815947}}

=Biological materials =

* '''Mutant:'''
** GP1701 (''lmrB''::''aphA3''), available in [[Jörg Stülke]]'s lab
** GP1703 (''lmrB''::''aphA3'' ''ycnB''::''spc''), 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>15317768,17483215,12499232, 21815947 </pubmed>

[[Category:Protein-coding genes]]

YcnB

2014-03-14T09:10:42Z

Jkampf: /* Biological materials */

* '''Description:''' similar to multidrug resistance protein 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''ycnB''
|-
|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=BSU03840 ycnB]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 50 kDa, 10.833
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1416 bp, 472 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yclQ]]'', ''[[ycnC]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU03840 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU03840 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU03840 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:ycnB_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=ycnB_436036_437454_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:ycnB_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU03840]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[transporters/ other]]}},
{{SubtiWiki category|[[resistance against toxins/ antibiotics]]}},
{{SubtiWiki category|[[membrane proteins]]}}

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU03840

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12038]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

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

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

* '''Paralogous protein(s):''' [[LmrB]], [[YhcA]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

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

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

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

* '''[[Localization]]:''' cell membrane (according to Swiss-Prot), membrane associated [http://www.ncbi.nlm.nih.gov/pubmed/18763711 PubMed]

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P94422 P94422]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU03840]

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

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[ycnC]]-[[ycnB]]'' {{PubMed|22383849}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ycnB_436036_437454_-1 ycnB] {{PubMed|22383849}}

* '''Sigma factor:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''
** GP1702 (''ycnB''::''spc''), available in [[Jörg Stülke]]'s lab
** GP1703 (''lmrB''::''aphA3'' ''ycnB''::''spc''), 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>18763711, 22383849</pubmed>

[[Category:Protein-coding genes]]

LmrB

2014-03-14T09:07:14Z

Jkampf: /* Biological materials */

* '''Description:''' lincomycin-resistance protein (multidrug resistance pump) 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''lmrB''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yccA ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || lincomycin-resistance protein
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || resistance to lincomycin
|-
|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=BSU02670 lmrB]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 51 kDa, 9.703
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1437 bp, 479 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ycbU]]'', ''[[lmrA]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU02670 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU02670 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU02670 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:lmrB_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=lmrB_288653_290092_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:lmrB_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU02670]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[transporters/ other]]}},
{{SubtiWiki category|[[resistance against toxins/ antibiotics]]}},
{{SubtiWiki category|[[membrane proteins]]}}

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU02670

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12613]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

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

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

* '''Paralogous protein(s):''' [[YcnB]], [[YhcA]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

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

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

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

* '''[[Localization]]:'''
** cell membrane (according to Swiss-Prot)

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/O35018 O35018]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU02670]

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

=== Additional information===

=Expression and regulation=
* '''Operon:''' ''[[lmrA]]-[[lmrB]]'' {{PubMed|15317768}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=lmrB_288653_290092_-1 lmrB] {{PubMed|22383849}}

* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|12499232}}

* '''Regulation:'''
** induced by flavonoids such as quercetin ([[LmrA]]){{PubMed|17483215}}

* '''Regulatory mechanism:'''
** [[LmrA]]: transcription repression {{PubMed|15317768}}

* '''Additional information:'''
** the mRNA is substantially stabilized upon depletion of [[Rny|RNase Y]] {{PubMed|21815947}}

=Biological materials =

* '''Mutant:'''
** GP1701 (''lmrB''::''aphA3''), 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>15317768,17483215,12499232, 21815947 </pubmed>

[[Category:Protein-coding genes]]