SubtiWiki - User contributions [en]

Regulons

2016-08-22T13:56:10Z

Dzeigler: /* DNA-binding regulators */

Overview on the regulons in ''B. subtilis''

= [[Sigma factors]] =

* [[SigB regulon]], see also [[SigB]]
* [[SigD regulon]], see also [[SigD]]
* [[SigE regulon]], see also [[SigE]]
* [[SigF regulon]], see also [[SigF]]
* [[SigG regulon]], see also [[SigG]]
* [[SigH regulon]], see also [[SigH]]
* [[SigI regulon]], see also [[SigI]]
* [[SigK regulon]], see also [[SigK]]
* [[SigL regulon]], see also [[SigL]]
* [[SigM regulon]], see also [[SigM]]
* [[SigV regulon]], see also [[SigV]]
* [[SigW regulon]], see also [[SigW]]
* [[SigX regulon]], see also [[SigX]]
* [[SigY regulon]], see also [[SigY]]
* [[Xpf regulon]], see also [[Xpf]]
* [[YlaC regulon]], see also [[YlaC]]
* [[SigO-RsoA regulon]], see also [[SigO]] and [[RsoA]]

= DNA-binding regulators =

* [[Abh regulon]], see also [[Abh]]
* [[AbrB regulon]], see also [[AbrB]]
* [[AcoR regulon]], see also [[AcoR]]
* [[AdaA regulon]], see also [[AdaA]]
* [[AdeR regulon]], see also [[AdeR]]
* [[AdhR regulon]], see also [[AdhR]]
* [[AhrC regulon]], see also [[AhrC]]
* [[AlsR regulon]], see also [[AlsR]]
* [[AnsR regulon]], see also [[AnsR]]
* [[AraR regulon]], see also [[AraR]]
* [[ArsR regulon]], see also [[ArsR]]
* [[AscR regulon]], see also [[AscR]]
* [[AseR regulon]], see also [[AseR]]
* [[AzlB regulon]], see also [[AzlB]]
* [[BceR regulon]], see also [[BceR]]
* [[BirA regulon]], see also [[BirA]]
* [[BkdR regulon]], see also [[BkdR]]
* [[BltR regulon]], see also [[BltR]]
* [[BmrR regulon]], see also [[BmrR]]
* [[BsdA regulon]], see also [[BsdA]]
* [[Btr regulon]], see also [[Btr]]
* [[CatR regulon]], see also [[CatR]]
* [[CcpA regulon]], see also [[CcpA]]
* [[CcpC regulon]], see also [[CcpC]]
* [[CcpN regulon]], see also [[CcpN]]
* [[CggR regulon]], see also [[CggR]]
* [[ChrS regulon]], see also [[ChrS]]
* [[CitR regulon]], see also [[CitR]]
* [[CitT regulon]], see also [[CitT]]
* [[CodY regulon]], see also [[CodY]]
* [[ComA regulon]], see also [[ComA]]
* [[ComK regulon]], see also [[ComK]]
* [[CsoR regulon]], see also [[CsoR]]
* [[CssR regulon]], see also [[CssR]]
* [[CtsR regulon]], see also [[CtsR]]
* [[CymR regulon]], see also [[CymR]]
* [[CysL regulon]], see also [[CysL]]
* [[CzrA regulon]], see also [[CzrA]]
* [[DegU regulon]], see also [[DegU]]
* [[DeoR regulon]], see also [[DeoR]]
* [[DesR regulon]], see also [[DesR]]
* [[DnaA regulon]], see also [[DnaA]]
* [[DtrR regulon]], see also [[DtrR]]
* [[ExuR regulon]], see also [[ExuR]]
* [[FadR regulon]], see also [[FadR]]
* [[FapR regulon]], see also [[FapR]]
* [[FatR regulon]], see also [[FatR]]
* [[Fnr regulon]], see also [[Fnr]]
* [[FrlR regulon]], see also [[FrlR]]
* [[FruR regulon]], see also [[FruR]]
* [[Fur regulon]], see also [[Fur]]
* [[GabR regulon]], see also [[GabR]]
* [[GamR regulon]], see also [[GamR]]
* [[GbsR regulon]], see also [[GbsR]]
* [[GerE regulon]], see also [[GerE]]
* [[GerR regulon]], see also [[GerR]]
* [[GlnL regulon]], see also [[GlnL]]
* [[GlnR regulon]], see also [[GlnR]]
* [[GltC regulon]], see also [[GltC]]
* [[GltR regulon]], see also [[GltR]]
* [[GlvR regulon]], see also [[GlvR]]
* [[GmuR regulon]], see also [[GmuR]]
* [[GntR regulon]], see also [[GntR]]
* [[GutR regulon]], see also [[GutR]]
* [[HrcA regulon]], see also [[HrcA]]
* [[HxlR regulon]], see also [[HxlR]]
* [[HypR regulon]], see also [[HypR]]
* [[ImmR regulon]], see also [[ImmR]]
* [[IolR regulon]], see also [[IolR]]
* [[KdgR regulon]], see also [[KdgR]]
* [[KipR regulon]], see also [[KipR]]
* [[LacR regulon]], see also [[LacR]]
* [[LevR regulon]], see also [[LevR]]
* [[LexA regulon]], see also [[LexA]]
* [[LiaR regulon]], see also [[LiaR]]
* [[LicR regulon]], see also [[LicR]]
* [[LmrA regulon]], see also [[LmrA]]
* [[LutR regulon]], see also [[LutR]]
* [[MalR regulon]], see also [[MalR]]
* [[ManR regulon]], see also [[ManR]]
* [[MdtR regulon]], see also [[MdtR]]
* [[MgsR regulon]], see also [[MgsR]]
* [[MhqR regulon]], see also [[MhqR]]
* [[MntR regulon]], see also [[MntR]]
* [[Mta regulon]], see also [[Mta]]
* [[MtlR regulon]], see also [[MtlR]]
* [[NadR regulon]], see also [[NadR]]
* [[NagR regulon]], see also [[NagR]]
* [[NatR regulon]], see also [[NatR]]
* [[NrdR regulon]], see also [[NrdR]]
* [[NsrR regulon]], see also [[NsrR]]
* [[NtdR regulon]], see also [[NtdR]]
* [[OhrR regulon]], see also [[OhrR]]
* [[OpcR regulon]], see also [[OpcR]]
* [[PadR regulon]], see also [[PadR]]
* [[PchR regulon]], see also [[YvmB]]
* [[PerR regulon]], see also [[PerR]]
* [[PhoP regulon]], see also [[PhoP]]
* [[PsdR regulon]], see also [[PsdR]]
* [[PucR regulon]], see also [[PucR]]
* [[PurR regulon]], see also [[PurR]]
* [[PutR regulon]], see also [[PutR]]
* [[QdoR regulon]], see also [[QdoR]]
* [[RemA regulon]], see also [[RemA]]
* [[ResD regulon]], see also [[ResD]]
* [[Rex regulon]], see also [[Rex]]
* [[RghR regulon]], see also [[RghR]]
* [[RhaR regulon]], see also [[RhaR]]
* [[RhgR regulon]], see also [[RhgR]]
* [[RocR regulon]], see also [[RocR]]
* [[Rok regulon]], see also [[Rok]]
* [[RsfA regulon]], see also [[RsfA]]
* [[SalA regulon]], see also [[SalA]]
* [[ScoC regulon]], see also [[ScoC]]
* [[SdpR regulon]], see also [[SdpR]]
* [[SenS regulon]], see also [[SenS]]
* [[SinR regulon]], see also [[SinR]]
* [[SknR regulon]], see also [[SknR]]
* [[SlrR regulon]], see also [[SlrR]]
* [[Spo0A regulon]], see also [[Spo0A]]
* [[SpoIIID regulon]], see also [[SpoIIID]]
* [[SpoVT regulon]], see also [[SpoVT]]
* [[Spx regulon]], see also [[Spx]]
* [[TilS-HprT regulon]], see also [[TilS]], [[HprT]]
* [[ThrR regulon]], see also [[ThrR]]
* [[TnrA regulon]], see also [[TnrA]]
* [[TreR regulon]], see also [[TreR]]
* [[WalR regulon]], see also [[WalR]]
* [[Xre regulon]], see also [[Xre]]
* [[XylR regulon]], see also [[XylR]]

* [[YcbG regulon]], see also [[YcbG]]
* [[YclJ regulon]], see also [[YclJ]]
* [[YcnK regulon]], see also [[YcnK]]
* [[YdfI regulon]], see also [[YdfI]]

* [[YetL regulon]], see also [[YetL]]
* [[YfhP regulon]], see also [[YfhP]]
* [[YfiK regulon]], see also [[YfiK]]
* [[YfmP regulon]], see also [[YfmP]]
* [[YkrK regulon]], see also [[YkrK]]
* [[YodB regulon]], see also [[YodB]]
* [[YofA regulon]], see also [[YofA]]
* [[YrkP regulon]], see also [[YrkP]]
* [[YtrA regulon]], see also [[YtrA]]
* [[YvrHb regulon]], see also [[YvrHb]]
* [[YwbI regulon]], see also [[YwbI]]
* [[YwcC regulon]], see also [[YwcC]]
* [[YxdJ regulon]], see also [[YxdJ]]
* [[Zur regulon]], see also [[Zur]]

= [[RNA switch|RNA switches]] =

* [[A-box]]
* [[EAR riboswitch]]
* [[FMN-box]]
* [[G-box]]
* [[GlcT regulon]], see also [[GlcT]]
* [[glmS ribozyme]]
* [[GlpP regulon]], see also [[GlpP]]
* [[Gly-box]]
* [[HutP regulon]], see also [[HutP]]
* [[L-box]]
* [[LicT regulon]], see also [[LicT]]
* [[M-box]]
* [[preQ1 riboswitch]]
* [[PyrR regulon]], see also [[PyrR]]
* [[RplT regulon]], see also [[RplT]]
* [[SacT regulon]], see also [[SacT]]
* [[SacY regulon]], see also [[SacY]]
* [[S-box]]
* [[T-box]]
* [[Thi-box]]
* [[TRAP regulon]], see also [[MtrB]]
* [[YdaO riboswitch]]
* [[yybP-ykoY motif]]
* [[RNA switch/ other]]

= [[RNases]] =
* [[RNase III targets]]
* [[RNase Y targets]]

= Additional regulatory mechanisms =
* [[BmrB regulon]], see also [[BmrB]]
* [[CitB regulon]], see also [[CitB]]
* [[ComN regulon]], see also [[ComN]]
* [[CsrA regulon]], see also [[CsrA]]
* [[FbpB regulon]], see also ''[[FbpB]]''
* [[fsrA regulon]], see also ''[[fsrA]]''
* [[Kre regulon]], see also [[Kre]]
* [[MifM regulon]], see also [[MifM]]
* [[as-bsrH regulon]], see also ''[[as-bsrH]]''
* [[as-yonT regulon]], see also ''[[as-yonT]]''
* [[ratA regulon]], see also ''[[ratA]]''
* [[RoxS regulon]], see also [[RoxS]]
* [[SR1 regulon]], see also [[sr1]]
* [[Stringent response]]

=Key publications=
<pubmed> 22235300 </pubmed>

PchR regulon

2016-08-22T13:54:44Z

Dzeigler: Novel regulon

=== Repression ===
* ''[[yvmB]]-[[yvmA]]''
* ''[[yvmC]]-[[cypX]]''
=== Activation ===
* ''[[yisI]]

= Important publications on the [[PchR]] regulon =
<pubmed> 27542896 </pubmed>

Iron metabolism

2016-08-22T13:21:30Z

Dzeigler: /* Acquisition of iron/other */

{{CategoryTree
|Parents=
* 2. [[Metabolism]]
** 2.6. [[Additional metabolic pathways]]
|Neighbours=
* 2.6.1. [[Biosynthesis of cell wall components]]
* 2.6.2. [[Biosynthesis of cofactors]]
* 2.6.3. [[Phosphate metabolism]]
* 2.6.4. [[Sulfur metabolism]]
* 2.6.5. [[Iron metabolism]]
* 2.6.6. [[Miscellaneous metabolic pathways]]
|Related=
* [[Acquisition of iron]]
* [[Fur regulon]]
|}}

== Genes in this functional category ==
* Note: the main systems for iron uptake in ''B. subtilis'' 168 are [[YfmF]]-[[YfmD]]-[[YfmE]]-[[YfmC]]-[[YhfQ]] and [[EfeO]]-[[EfeU]] with [[EfeB]] {{PubMed|22194458}}

===[[ABC transporters]] for the[[Iron metabolism|uptake of iron/ siderophores]]===
* [[YusV]]-[[FeuB]]-[[FeuC]]-[[FeuA]]: uptake of the siderophores enterobactin and bacillibactin
* [[FhuC]]-[[FhuB]]-[[FhuG]]-[[FhuD]]-[[YxeB]]: uptake of ferrichrome und ferrioxamine
* [[YclN]]-[[YclO]]-[[YclP]]-[[YclQ]]: uptake of petrobactin (a siderophore produced by ''B. anthracis'' and ''B. cereus'')
* [[YusV]]-[[YfiZ]]-[[YfhA]]-[[YfiY]]: uptake of the siderophores schizokinen and arthrobactin
* [[YfmF]]-[[YfmD]]-[[YfmE]]-[[YfmC]]-[[YhfQ]]: uptake of iron/citrate

=== Elemental iron transport system ===
* [[EfeO]]-[[EfeU]], [[EfeB]]

=== Acquisition of iron/other ===
* [[besA]]
* [[btr]]
* [[cypX]]
* [[dhbA]]
* [[dhbB]]
* [[dhbC]]
* [[dhbE]]
* [[dhbF]]
* [[dps]]
* [[fbpA]]
* [[fbpB]]
* [[fbpC]]
* [[fsrA]]
* [[fur]]
* [[mrgA]]
* [[ybbA]]
* [[yhfQ]]
* [[ymfD]]
* [[yvmB]]
* [[yvmC]]

=== Acquisition of iron/ based on similarity ===
* [[ytoA]]
* [[yvrA]]
* [[yvrB]]
* [[yvrC]]

=== Export of Fe(II)===
* [[pfeT]]

=== Biosynthesis of iron-sulfur clusters ===
* ''[[fra]]''
* ''[[sufA]]''
* ''[[sufB]]''
* ''[[sufC]]''
* ''[[sufD]]''
* ''[[sufS]]''
* ''[[sufU]]''
* ''[[yitW]]''

==Key reviews==
<pubmed> 20467446 16211402 12732309 23192658 25160631 26259870 26488283</pubmed>

=Back to [[categories]]=

Acquisition of iron

2016-08-22T13:20:25Z

Dzeigler: /* Other genes in this functional category */

{{CategoryTree
|Parents=
* 1. [[Cellular processes]]
** 1.3. [[Homeostasis]]
|Neighbours=
* 1.3.1. [[Metal ion homeostasis (K, Na, Ca, Mg)]]
* 1.3.2. [[Trace metal homeostasis (Cu, Zn, Ni, Mn, Mo)]]
* 1.3.3. [[Acquisition of iron]]
* 1.3.4. [[pH homeostasis]]
|Related=
* [[Iron metabolism]]
* [[Fur regulon]]
|}}

* Note: the main systems for iron uptake in ''B. subtilis'' 168 are [[YfmF]]-[[YfmD]]-[[YfmE]]-[[YfmC]]-[[YhfQ]] and [[EfeO]]-[[EfeU]] with [[EfeB]] {{PubMed|22194458}}

==[[ABC transporters]] for the[[Iron metabolism|uptake of iron/ siderophores]]==
* [[YusV]]-[[FeuB]]-[[FeuC]]-[[FeuA]]: uptake of the siderophores enterobactin and bacillibactin
* [[FhuC]]-[[FhuB]]-[[FhuG]]-[[FhuD]]-[[YxeB]]: uptake of ferrichrome und ferrioxamine
* [[YclN]]-[[YclO]]-[[YclP]]-[[YclQ]]: uptake of petrobactin (a siderophore produced by ''B. anthracis'' and ''B. cereus'')
* [[YusV]]-[[YfiZ]]-[[YfhA]]-[[YfiY]]: uptake of the siderophores schizokinen and arthrobactin
* [[YfmF]]-[[YfmD]]-[[YfmE]]-[[YfmC]]-[[YhfQ]]: uptake of iron/citrate

== Elemental iron transport system ==
* [[EfeO]]-[[EfeU]], [[EfeB]]

== Other genes in this functional category ==
* ''[[besA]]''
* ''[[btr]]''
* ''[[cypX]]''
* ''[[dhbA]]''
* ''[[dhbB]]''
* ''[[dhbC]]''
* ''[[dhbE]]''
* ''[[dhbF]]''
* ''[[dps]]''
* ''[[fbpA]]''
* ''[[fbpB]]''
* ''[[fbpC]]''
* ''[[fur]]''
* ''[[hmoA]]''
* ''[[hmoB]]''
* ''[[mrgA]]''
* ''[[ybbA]]''
* ''[[yfhA]]''
* ''[[yfiY]]''
* ''[[yfiZ]]''
* ''[[ymfD]]''
* ''[[ytpQ]]''
* ''[[yvmB]]''
* ''[[yvmC]]''
* ''[[yxeB]]''

== Additional candidates (based on similarity) ==
* [[ytoA]]
* [[yvrA]]
* [[yvrB]]
* [[yvrC]]
==Reviews==
<pubmed> 15802251 20466767 23192658 25160631 </pubmed>

=Back to [[categories]]=

MarR family

2016-08-22T13:12:03Z

Dzeigler: /* Members of this family in B. subtilis */

==Members of this family in ''B. subtilis''==

* [[CatR]]
* [[HxlR]]
* [[HypR]]
* [[YdeP]]
* [[YdzF]]
* [[YkvN]]
* [[YodB]]
* [[YtcD]]
* [[YvmB]]

= Back to [[Transcription factors and their control]] =

ComGC

2015-05-28T15:33:21Z

Dzeigler: /* Phenotypes of a mutant */

ComGC

2015-05-28T15:31:37Z

Dzeigler: /* Phenotypes of a mutant */

* '''Description:''' DNA uptake, major component of the [[pseudopilus]] 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''comGC''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || major pseudopilin
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || [[genetic competence]]
|-
|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=BSU24710 comGC]
|-
|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=ComGC ComGC]
|-
|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=ComGC ComGC]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 10 kDa, 6.325
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 294 bp, 98 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[comGD]]'', ''[[comGB]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24710 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24710 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24710 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:comGC_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=comGC_2557673_2557969_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:comGC_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24710]]
|-
|}

__TOC__
 
 
 
 
 

 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[genetic competence]]}},
{{SubtiWiki category|[[membrane proteins]]}}

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU24710

===Phenotypes of a mutant ===
* knockout has complete loss of transformation competence

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24710&redirect=T BSU24710]

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10485]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

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

* '''Protein family:''' comGC 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]]:'''
** [[ComGB]]-[[ComGC]] {{PubMed|15083159}}
** [[ComC]]-[[ComGC]] {{PubMed|9723928}}
** forms large complexes (the [[pseudopilus]]) {{PubMed|21278288}}

* '''[[Localization]]:'''
** cell surface [http://www.ncbi.nlm.nih.gov/pubmed/9723928 PubMed]
** localizes to the cell membrane and the cytoplasm {{PubMed|21278288}}
** localizes to one single cell pole in the majority of the cells {{PubMed|21278288}}

=== Database entries ==

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P25955 P25955]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24710]

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

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[comGA]]-[[comGB]]-[[comGC]]-[[comGD]]-[[comGE]]-[[comGF]]-[[comGG]]-[[yqzE]]'' {{PubMed|2507524}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=comGC_2557673_2557969_-1 comGC] {{PubMed|22383849}}

* '''Sigma factor:''' [[SigA]] {{PubMed|2507524}}

* '''Regulation:'''
** repressed by casamino acids [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed]

* '''Regulatory mechanism:'''
** [[ComK]]: transcription activation {{PubMed|8196543}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=
==Reviews==
<pubmed> 15083159 </pubmed>
==Original publications==
<pubmed>11744713,11814663,9422590,16751195,9723928,1968455,7783624,21278288,12107147, 2507524 8196543</pubmed>

[[Category:Protein-coding genes]]

ComFA

2015-05-28T15:27:54Z

Dzeigler: /* Phenotypes of a mutant */

* '''Description:''' membrane-associated ATPase, may provide energy for DNA transport 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''comFA''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || ATP-binding protein
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || [[genetic competence]]
|-
|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=BSU35470 comFA]
|-
|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=ComFA ComFA]
|-
|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=ComFA ComFA]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 52 kDa, 9.824
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1389 bp, 463 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[comFB]]'', ''[[yviA]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU35470 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU35470 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU35470 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:comFA_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=comFA_3642167_3643558_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:comFA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU35470]]
|-
|}

__TOC__
 
 
 
 

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

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU35470

===Phenotypes of a mutant ===
* knockout has 1000-fold reduction in transformability compared to the wild-type [http://www.ncbi.nlm.nih.gov/pubmed/8412657 PubMed]

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU35470&redirect=T BSU35470]

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/comFABC-yvyF-flgM-yvyG-flgKL.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10395]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

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

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

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

=== Extended information on the protein ===

* '''Kinetic information:'''

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

* '''Modification:'''
** phosphorylated on Arg-20, Arg-186, and Arg-446 {{PubMed|22517742}}

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

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

* '''[[SubtInteract|Interactions]]:'''
** [[ComGA]]-[[ComFA]] {{PubMed|17630974}}
** [[ComEC]]-[[ComFA]] {{PubMed|17630974}}
** [[CoiA]]-[[ComFA]] {{PubMed|17630974}}
** [[SsbB]]-[[ComFA]] {{PubMed|17630974}}
** [[DprA]]-[[ComFA]] {{PubMed|17630974}}
** [[RecA]]-[[ComFA]] {{PubMed|17630974}}

* '''[[Localization]]:'''
** cell membrane [http://www.ncbi.nlm.nih.gov/pubmed/7984101 PubMed]
** localizes to cell poles in competent cells [http://www.ncbi.nlm.nih.gov/pubmed/16009133 PubMed]
** localizes to cell poles {{PubMed|21278288}}

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU35470&redirect=T BSU35470]

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P39145 P39145]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU35470]

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

=== Additional information===

=Expression and regulation=
* '''Operon:''' ''[[comFA]]-[[comFB]]-[[comFC]]-[[yvyF]]-[[flgM]]-[[flgN]]-[[flgK]]-[[flgL]]'' {{PubMed|8412657}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=comFA_3642167_3643558_-1 comFA] {{PubMed|22383849}}

* '''[[Sigma factor]]:''' ''[[comFA]]'': [[SigA]] {{PubMed|8412657}}

* '''Regulation:'''

* '''Regulatory mechanism:'''
** [[ComK]]: transcription activation {{PubMed|8412657}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=
==Reviews==
<pubmed> 15083159 </pubmed>
==Original publications==
'''Additional publications:''' {{PubMed|21397556}}
<pubmed>11814663,8412657,7984101,16009133,8045895,17630974, 21278288 22517742</pubmed>

[[Category:Protein-coding genes]]

ComFA

2015-05-28T15:25:41Z

Dzeigler: /* Phenotypes of a mutant */

* '''Description:''' membrane-associated ATPase, may provide energy for DNA transport 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''comFA''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || ATP-binding protein
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || [[genetic competence]]
|-
|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=BSU35470 comFA]
|-
|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=ComFA ComFA]
|-
|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=ComFA ComFA]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 52 kDa, 9.824
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1389 bp, 463 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[comFB]]'', ''[[yviA]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU35470 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU35470 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU35470 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:comFA_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=comFA_3642167_3643558_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:comFA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU35470]]
|-
|}

__TOC__
 
 
 
 

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

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU35470

===Phenotypes of a mutant ===
knockout has 1000-fold reduction in transformability compared to the wild-type [http://www.ncbi.nlm.nih.gov/pubmed/8412657 PubMed]

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU35470&redirect=T BSU35470]

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/comFABC-yvyF-flgM-yvyG-flgKL.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10395]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

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

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

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

=== Extended information on the protein ===

* '''Kinetic information:'''

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

* '''Modification:'''
** phosphorylated on Arg-20, Arg-186, and Arg-446 {{PubMed|22517742}}

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

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

* '''[[SubtInteract|Interactions]]:'''
** [[ComGA]]-[[ComFA]] {{PubMed|17630974}}
** [[ComEC]]-[[ComFA]] {{PubMed|17630974}}
** [[CoiA]]-[[ComFA]] {{PubMed|17630974}}
** [[SsbB]]-[[ComFA]] {{PubMed|17630974}}
** [[DprA]]-[[ComFA]] {{PubMed|17630974}}
** [[RecA]]-[[ComFA]] {{PubMed|17630974}}

* '''[[Localization]]:'''
** cell membrane [http://www.ncbi.nlm.nih.gov/pubmed/7984101 PubMed]
** localizes to cell poles in competent cells [http://www.ncbi.nlm.nih.gov/pubmed/16009133 PubMed]
** localizes to cell poles {{PubMed|21278288}}

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU35470&redirect=T BSU35470]

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P39145 P39145]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU35470]

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

=== Additional information===

=Expression and regulation=
* '''Operon:''' ''[[comFA]]-[[comFB]]-[[comFC]]-[[yvyF]]-[[flgM]]-[[flgN]]-[[flgK]]-[[flgL]]'' {{PubMed|8412657}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=comFA_3642167_3643558_-1 comFA] {{PubMed|22383849}}

* '''[[Sigma factor]]:''' ''[[comFA]]'': [[SigA]] {{PubMed|8412657}}

* '''Regulation:'''

* '''Regulatory mechanism:'''
** [[ComK]]: transcription activation {{PubMed|8412657}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=
==Reviews==
<pubmed> 15083159 </pubmed>
==Original publications==
'''Additional publications:''' {{PubMed|21397556}}
<pubmed>11814663,8412657,7984101,16009133,8045895,17630974, 21278288 22517742</pubmed>

[[Category:Protein-coding genes]]

ComFA

2015-05-28T15:24:14Z

Dzeigler: /* Phenotypes of a mutant */

* '''Description:''' membrane-associated ATPase, may provide energy for DNA transport 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''comFA''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || ATP-binding protein
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || [[genetic competence]]
|-
|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=BSU35470 comFA]
|-
|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=ComFA ComFA]
|-
|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=ComFA ComFA]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 52 kDa, 9.824
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1389 bp, 463 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[comFB]]'', ''[[yviA]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU35470 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU35470 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU35470 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:comFA_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=comFA_3642167_3643558_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:comFA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU35470]]
|-
|}

__TOC__
 
 
 
 

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

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU35470

===Phenotypes of a mutant ===
knockout has 1000-fold reduction in transformability compared to the wild-type

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU35470&redirect=T BSU35470]

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/comFABC-yvyF-flgM-yvyG-flgKL.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10395]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

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

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

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

=== Extended information on the protein ===

* '''Kinetic information:'''

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

* '''Modification:'''
** phosphorylated on Arg-20, Arg-186, and Arg-446 {{PubMed|22517742}}

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

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

* '''[[SubtInteract|Interactions]]:'''
** [[ComGA]]-[[ComFA]] {{PubMed|17630974}}
** [[ComEC]]-[[ComFA]] {{PubMed|17630974}}
** [[CoiA]]-[[ComFA]] {{PubMed|17630974}}
** [[SsbB]]-[[ComFA]] {{PubMed|17630974}}
** [[DprA]]-[[ComFA]] {{PubMed|17630974}}
** [[RecA]]-[[ComFA]] {{PubMed|17630974}}

* '''[[Localization]]:'''
** cell membrane [http://www.ncbi.nlm.nih.gov/pubmed/7984101 PubMed]
** localizes to cell poles in competent cells [http://www.ncbi.nlm.nih.gov/pubmed/16009133 PubMed]
** localizes to cell poles {{PubMed|21278288}}

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU35470&redirect=T BSU35470]

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P39145 P39145]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU35470]

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

=== Additional information===

=Expression and regulation=
* '''Operon:''' ''[[comFA]]-[[comFB]]-[[comFC]]-[[yvyF]]-[[flgM]]-[[flgN]]-[[flgK]]-[[flgL]]'' {{PubMed|8412657}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=comFA_3642167_3643558_-1 comFA] {{PubMed|22383849}}

* '''[[Sigma factor]]:''' ''[[comFA]]'': [[SigA]] {{PubMed|8412657}}

* '''Regulation:'''

* '''Regulatory mechanism:'''
** [[ComK]]: transcription activation {{PubMed|8412657}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=
==Reviews==
<pubmed> 15083159 </pubmed>
==Original publications==
'''Additional publications:''' {{PubMed|21397556}}
<pubmed>11814663,8412657,7984101,16009133,8045895,17630974, 21278288 22517742</pubmed>

[[Category:Protein-coding genes]]

PrkA

2014-10-14T17:26:48Z

Dzeigler: /* Phenotypes of a mutant */

PrkA

2014-10-14T16:09:14Z

Dzeigler: /* Phenotypes of a mutant */

* '''Description:''' putative serine protein kinase 
{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''prkA''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || putative serine protein kinase
|-
|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=BSU08970 prkA]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 72 kDa, 5.459
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1893 bp, 631 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yhbF]]'', ''[[yhbH]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU08970 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU08970 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU08970 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:prkA_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=prkA_973156_975051_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:prkA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU08970]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[sporulation proteins]]}}

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU08970

===Phenotypes of a mutant ===
* sporulation frequency reduced to 12-27% of wild-type levels [http://www.ncbi.nlm.nih.gov/pubmed/12662922 PubMed]

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU08970&redirect=T BSU08970]

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10804]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

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

* '''Protein family:''' prkA 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 ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU08970&redirect=T BSU08970]

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P39134 P39134]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU08970]

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

=== Additional information===
* [http://ecocyc.org/ECOLI/NEW-IMAGE?type=ENZYME&object=G6969-MONOMER the corresponding protein from ''E. coli'' (YeaG)]
=Expression and regulation=

* '''Operon:''' ''prkA'' {{PubMed|8626065}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=prkA_973156_975051_1 prkA] {{PubMed|22383849}}

* '''Sigma factor:''' [[SigE]] {{PubMed|15699190,12662922}}

* '''Regulation:'''
** repressed by casamino acids [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed]

* '''Regulatory mechanism:'''

* '''Additional information:'''
** number of protein molecules per cell (minimal medium with glucose and ammonium): 34 {{PubMed|24696501}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 170 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 22 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 482 {{PubMed|21395229}}

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

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>12662922, 18276156,12107147 8626065, </pubmed>

[[Category:Protein-coding genes]]

PrkA

2014-10-14T16:08:12Z

Dzeigler: /* Phenotypes of a mutant */

* '''Description:''' putative serine protein kinase 
{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''prkA''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || putative serine protein kinase
|-
|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=BSU08970 prkA]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 72 kDa, 5.459
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1893 bp, 631 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yhbF]]'', ''[[yhbH]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU08970 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU08970 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU08970 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:prkA_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=prkA_973156_975051_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:prkA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU08970]]
|-
|}

__TOC__
 
 
 
 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[sporulation proteins]]}}

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU08970

===Phenotypes of a mutant ===
sporulation frequency reduced to 12-27% of wild-type levels [http://www.ncbi.nlm.nih.gov/pubmed/12662922 PubMed]

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU08970&redirect=T BSU08970]

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10804]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

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

* '''Protein family:''' prkA 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 ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU08970&redirect=T BSU08970]

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P39134 P39134]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU08970]

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

=== Additional information===
* [http://ecocyc.org/ECOLI/NEW-IMAGE?type=ENZYME&object=G6969-MONOMER the corresponding protein from ''E. coli'' (YeaG)]
=Expression and regulation=

* '''Operon:''' ''prkA'' {{PubMed|8626065}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=prkA_973156_975051_1 prkA] {{PubMed|22383849}}

* '''Sigma factor:''' [[SigE]] {{PubMed|15699190,12662922}}

* '''Regulation:'''
** repressed by casamino acids [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed]

* '''Regulatory mechanism:'''

* '''Additional information:'''
** number of protein molecules per cell (minimal medium with glucose and ammonium): 34 {{PubMed|24696501}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 170 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 22 {{PubMed|21395229}}
** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 482 {{PubMed|21395229}}

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

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>12662922, 18276156,12107147 8626065, </pubmed>

[[Category:Protein-coding genes]]

YdiD

2014-08-27T17:46:32Z

Dzeigler: added synonym

RadC

2014-06-08T01:47:21Z

Dzeigler: /* References */

RadC

2014-06-08T01:39:38Z

Dzeigler: /* Your additional remarks */

* '''Description:''' probable DNA repair protein 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''radC''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ysxA ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || probable DNA repair protein
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || DNA repair
|-
|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=BSU28040 radC]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 25 kDa, 7.829
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 693 bp, 231 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[mreB]]'', ''[[maf]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU28040 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU28040 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU28040 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' [[Image:radC_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=radC_2861840_2862535_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:radC_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU28040]]
|-
|}

__TOC__
 
 
 
 
 

 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[DNA repair/ recombination]]}},
{{SubtiWiki category|[[genetic competence]]}},
{{SubtiWiki category|[[cell envelope stress proteins (controlled by SigM, V, W, X, Y)]]}},
{{SubtiWiki category|[[phosphoproteins]]}}

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU28040

===Phenotypes of a mutant ===

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU28040&redirect=T BSU28040]

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10325]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

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

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

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

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''
** phosphorylated on Arg-59 {{PubMed|22517742}}

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

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

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

* '''[[Localization]]:''' Cytoplasm (Homogeneous) [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]

=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU28040&redirect=T BSU28040]

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/Q02170 Q02170]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU28040]

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

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''radC'' (according to [http://dbtbs.hgc.jp/COG/prom/radC.html DBTBS]), ''[[radC]]-[[mreB]]-[[mreC]]-[[mreD]]-[[minC]]-[[minD]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/18179421 PubMed]

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=radC_2861840_2862535_-1 radC] {{PubMed|22383849}}

* '''Sigma factor:''' [[SigM]] {{PubMed|12775685}}

* '''Regulation:'''
** expressed in response to cell wall antibiotics, ethanol, heat, acid, and superoxide stress ([[SigM]]) {{PubMed|12775685}}
** expression is reduced in a [[SigV]] mutant {{PubMed|21926231}}

* '''Regulatory mechanism:'''
** [[ComK]]: transcription activation {{PubMed|11948146,11918817}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=
The ''radC'' locus is the chromosomal integration site for the φ105 prophage [http://www.ncbi.nlm.nih.gov/pubmed/24009114 Pubmed]

=References=
'''Additional publications:''' {{PubMed|21926231}}
<pubmed>17434969, 11948146,11918817,16479537 12775685 18179421 22517742</pubmed>

[[Category:Protein-coding genes]]

YvaQ

2012-09-25T19:04:37Z

Dzeigler: /* References */

* '''Description:''' membrane-bound chemotaxis receptor, similar to methyl-accepting chemotaxis protein 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''yvaQ''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || membrane-bound chemotaxis receptor
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || control of chemotaxis
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU33690 yvaQ]
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 62 kDa, 4.616
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1698 bp, 566 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[catR]]'', ''[[opuBD]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB15374]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:yvaQ_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=yvaQ_3458066_3459766_1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:yvaQ_expression.png|500px]]
|-
|}

__TOC__
 
 
 
 
 

 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[motility and chemotaxis]]}},
{{SubtiWiki category|[[membrane proteins]]}}

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

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU33690

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG14072]

=== 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:'''

* '''Interactions:'''

* '''Localization:'''
** cell membrane {{PubMed|21515776}}

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/O32239 O32239]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU33690]

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

=== Additional information===

=Expression and regulation=

* '''Operon:'''

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yvaQ_3458066_3459766_1 yvaQ] {{PubMed|22383849}}

* '''Sigma factor:'''

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''
** in minimal medium, YvaQ is present with 1,400 +/- 380 molecules per cell {{PubMed|21515776}}

=Biological materials =

* '''Mutant:'''

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>21515776, </pubmed>

[[Category:Protein-coding genes]]

ScoC

2012-09-11T16:18:02Z

Dzeigler: /* Biological materials */

* '''Description:''' transcriptional repressor of genes expressed in the transition phase 
{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''scoC''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''hpr, catA''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || transcriptional repressor (MarR family)
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || transition state regulator
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU09990 scoC]
|-
|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/ScoC ScoC]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm], [http://subtiwiki.uni-goettingen.de/pathways/other_nitrogen_sources/index.html Alternative nitrogen sources]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 23 kDa, 5.188
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 609 bp, 203 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yhaI]]'', ''[[yhaH]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB12839]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:hpr_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=scoC_1073106_1073717_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:scoC_expression.png|500px]]
|-
|}

__TOC__
 
 
 
 
 

 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[transcription factors and their control]]}},
{{SubtiWiki category|[[transition state regulators]]}},
{{SubtiWiki category|[[phosphoproteins]]}}

= This gene is a member of the following [[regulons]] =
{{SubtiWiki regulon|[[AbrB regulon]]}},
{{SubtiWiki regulon|[[SalA regulon]]}},
{{SubtiWiki regulon|[[SenS regulon]]}}

=The [[ScoC regulon]]=

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU09990

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10659]

=== 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-3 {{PubMed|22517742}}

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

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

* '''[[SubtInteract|Interactions]]:'''
** [[SinR]]-[[ScoC]]

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

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=2FXA 2FXA]

* '''UniProt:''' [http://www.uniprot.org/uniprot/P11065 P11065]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU09990]

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

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''scoC'' {{PubMed|3131303}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=scoC_1073106_1073717_-1 scoC] {{PubMed|22383849}}

* '''Sigma factor:'''

* '''Regulation:'''
** expressed upon transition into the stationary phase ([[AbrB]]) {{PubMed|2504584}}

* '''Regulatory mechanism:'''
** [[AbrB]]: transcription activation {{PubMed|2504584}}
** [[SenS]]: positive regulation {{PubMed|16321961}}
** [[SalA]]: negative regulation {{PubMed|15126467}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' Strain OM213 of Ogura MA, et al {{PubMed|15126467}}, genotype ''trpC2 scoC::pMutin-scoC leuC7'', available as [http://bgsc.org BGSC] 1A918

* '''Expression vector:''' for expression, purification in E. coli with N-terminal His-tag, pRSETA available in Gerth lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>3131303,16923912,1906467,10383984,16321961,14629015,1907636,15126467,2504584, 15104138, 19118355 19801406 19898538 20382764 22517742</pubmed>

[[Category:Protein-coding genes]]

User:Dzeigler

2012-09-09T17:11:55Z

Dzeigler: /* Daniel R. Zeigler, Ph.D. */

== Daniel R. Zeigler, Ph.D. ==

Director, [http://bgsc.org Bacillus Genetic Stock Center]

Ohio State Univ / Dept Chem Biochem

484 W 12th Ave

Biological Sciences 712

Columbus, OH 43210

USA

Phone: 1 614 292 5550
Fax: 1 614 292 3206
[mailto://zeigler.1@osu.edu email]

User:Dzeigler

2012-09-09T17:11:11Z

Dzeigler: Created page with "== Daniel R. Zeigler, Ph.D. == Director, [http://bgsc.org Bacillus Genetic Stock Center] Ohio State Univ / Dept Chem Biochem 484 W 12th Ave Biological Sciences 712 Columbus, OH..."

== Daniel R. Zeigler, Ph.D. ==

Director, [http://bgsc.org Bacillus Genetic Stock Center]

Ohio State Univ / Dept Chem Biochem
484 W 12th Ave
Biological Sciences 712
Columbus, OH 43210
USA

Phone: 1 614 292 5550
Fax: 1 614 292 3206
[mailto://zeigler.1@osu.edu email]

ScoC

2012-09-09T17:02:26Z

Dzeigler: /* Biological materials */

* '''Description:''' transcriptional repressor of genes expressed in the transition phase 
{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''scoC''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''hpr, catA''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || transcriptional repressor (MarR family)
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || transition state regulator
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU09990 scoC]
|-
|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/ScoC ScoC]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm], [http://subtiwiki.uni-goettingen.de/pathways/other_nitrogen_sources/index.html Alternative nitrogen sources]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 23 kDa, 5.188
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 609 bp, 203 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yhaI]]'', ''[[yhaH]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB12839]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:hpr_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=scoC_1073106_1073717_-1 Expression at a glance]'''   {{PubMed|22383849}} [[Image:scoC_expression.png|500px]]
|-
|}

__TOC__
 
 
 
 
 

 

= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[transcription factors and their control]]}},
{{SubtiWiki category|[[transition state regulators]]}},
{{SubtiWiki category|[[phosphoproteins]]}}

= This gene is a member of the following [[regulons]] =
{{SubtiWiki regulon|[[AbrB regulon]]}},
{{SubtiWiki regulon|[[SalA regulon]]}},
{{SubtiWiki regulon|[[SenS regulon]]}}

=The [[ScoC regulon]]=

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU09990

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10659]

=== 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-3 {{PubMed|22517742}}

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

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

* '''[[SubtInteract|Interactions]]:'''
** [[SinR]]-[[ScoC]]

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

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=2FXA 2FXA]

* '''UniProt:''' [http://www.uniprot.org/uniprot/P11065 P11065]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU09990]

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

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''scoC'' {{PubMed|3131303}}

* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=scoC_1073106_1073717_-1 scoC] {{PubMed|22383849}}

* '''Sigma factor:'''

* '''Regulation:'''
** expressed upon transition into the stationary phase ([[AbrB]]) {{PubMed|2504584}}

* '''Regulatory mechanism:'''
** [[AbrB]]: transcription activation {{PubMed|2504584}}
** [[SenS]]: positive regulation {{PubMed|16321961}}
** [[SalA]]: negative regulation {{PubMed|15126467}}

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' Strain OM213 of Ogura MA, et al (Pubmed [[http://http://www.ncbi.nlm.nih.gov/pubmed?term=15126467 15126467]]), genotype ''trpC2 scoC::pMutin-scoC leuC7'', available as [http://bgsc.org BGSC] 1A918

* '''Expression vector:''' for expression, purification in E. coli with N-terminal His-tag, pRSETA available in Gerth lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>3131303,16923912,1906467,10383984,16321961,14629015,1907636,15126467,2504584, 15104138, 19118355 19801406 19898538 20382764 22517742</pubmed>

[[Category:Protein-coding genes]]

Spo0B

2009-08-03T14:32:19Z

Dzeigler:

* '''Description:''' sporulation initiation phosphotransferase 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''spo0B''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''spo0D ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || sporulation initiation phosphotransferase
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || initiation of sporulation
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 22 kDa, 4.963
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 576 bp, 192 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[obg]]'', ''[[rpmA]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB14753]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:spo0B_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU27930

===Phenotypes of a mutant ===

Arrest of sporulation at stage 0 (initiation) [http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=4633157 PubMed Central]

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/spo0B-obg.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10336]

=== 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:'''

* '''Interactions:''' [[Spo0B]]-[[Spo0F]]

* '''Localization:'''

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1F51 1F51] (complex with Spo0F), [http://www.rcsb.org/pdb/explore.do?structureId=1IXM 1IXM]

* '''UniProt:''' [http://www.uniprot.org/uniprot/P06535 P06535]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU27930]

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

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[spo0B]]-[[obg]]''

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

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''
**[http://www.ncbi.nlm.nih.gov/nuccore/254763670 spo0B12], point mutation 85C>T (=R29W), available in [http://www.bgsc.org/ BGSC] 1S54
**[http://www.ncbi.nlm.nih.gov/nuccore/254763672 spo0B136], amber mutation 103A>T (=K35X), available in [http://www.bgsc.org/ BGSC] 1S16
**[http://www.ncbi.nlm.nih.gov/nuccore/254763674 spo0B580ts], point mutation 193G>A (=E65K), available in [http://www.bgsc.org/ BGSC] 1S90
**[http://www.ncbi.nlm.nih.gov/nuccore/254763676 spo0B581ts], point mutation 461G>A (=G154D), available in [http://www.bgsc.org/ BGSC] 1S91

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>12730135,2437099,9141138,3918016,9299348,16788205,12067336,9726997,2118512,10997904,1846779,9477965, </pubmed>

[[Category:Protein-coding genes]]

Spo0B

2009-06-24T18:36:17Z

Dzeigler: /* Biological materials */

* '''Description:''' sporulation initiation phosphotransferase 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''spo0B''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''spo0D ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || sporulation initiation phosphotransferase
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || initiation of sporulation
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 22 kDa, 4.963
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 576 bp, 192 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[obg]]'', ''[[rpmA]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB14753]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:spo0B_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU27930

===Phenotypes of a mutant ===

Arrest of sporulation at stage 0 (initiation) [http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=4633157 PubMed Central]

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/spo0B-obg.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10336]

=== 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:'''

* '''Interactions:''' [[Spo0B]]-[[Spo0F]]

* '''Localization:'''

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1F51 1F51] (complex with Spo0F), [http://www.rcsb.org/pdb/explore.do?structureId=1IXM 1IXM]

* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P06535 P06535]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU27930]

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

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[spo0B]]-[[obg]]''

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

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''
**spo0B12, point mutation 85C>T (=R29W), available in [http://www.bgsc.org/ BGSC] 1S54
**spo0B136, amber mutation 103A>T (=K35X), available in [http://www.bgsc.org/ BGSC] 1S16
**spo0B580ts, point mutation 193G>A (=E65K), available in [http://www.bgsc.org/ BGSC] 1S90
**spo0B581ts, point mutation 461G>A (=G154D), available in [http://www.bgsc.org/ BGSC] 1S91

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>12730135,2437099,9141138,3918016,9299348,16788205,12067336,9726997,2118512,10997904,1846779,9477965, </pubmed>

Spo0B

2009-06-24T18:03:42Z

Dzeigler:

* '''Description:''' sporulation initiation phosphotransferase 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''spo0B''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''spo0D ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || sporulation initiation phosphotransferase
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || initiation of sporulation
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 22 kDa, 4.963
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 576 bp, 192 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[obg]]'', ''[[rpmA]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB14753]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:spo0B_context.gif]]
<div align="right"> This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</div>
|-
|}

__TOC__

 

=The gene=

=== Basic information ===

* '''Locus tag:''' BSU27930

===Phenotypes of a mutant ===

Arrest of sporulation at stage 0 (initiation) [http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=4633157 PubMed Central]

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/spo0B-obg.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10336]

=== 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:'''

* '''Interactions:''' [[Spo0B]]-[[Spo0F]]

* '''Localization:'''

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1F51 1F51] (complex with Spo0F), [http://www.rcsb.org/pdb/explore.do?structureId=1IXM 1IXM]

* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P06535 P06535]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU27930]

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

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[spo0B]]-[[obg]]''

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

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>12730135,2437099,9141138,3918016,9299348,16788205,12067336,9726997,2118512,10997904,1846779,9477965, </pubmed>

Ressources on Bacillus

2009-04-30T15:24:38Z

Dzeigler: typo correction

This is a partial list of ''Bacillus'' resources:

* [http://genolist.pasteur.fr/SubtiList/ SubtiList]: The genome database
* [https://www.genoscope.cns.fr/agc/mage/wwwpkgdb/Viewer/viewer.php?wwwpkgdb=4a62689b309780e25c57f662fadfddef&nocache=7c3dbfa86fa22feb09c74f80d006dacd&dir= BacilluScope]: Here you get access to a new genome sequence and the corresponding database (Barbe ''et al''., 2009)
* [http://dbtbs.hgc.jp/ DBTBS]: The transcription regulation database
* [http://www.bgsc.org BGSC]: The ''Bacillus'' Genetic Stock Center
* [http://www.bacell.eu/ BACELL]: The European ''Bacillus'' community homepage

Daniel R. Zeigler

2009-04-30T15:02:23Z

Dzeigler: Created page with '= Lab head: Dan Zeigler= '''Additional information''' * [mailto:zeigler.1@osu.edu send mail] * location: Columbus, OH USA * Homepage: [http://www.bgsc.org link] = Publications ...'

= Lab head: Dan Zeigler=
'''Additional information'''
* [mailto:zeigler.1@osu.edu send mail]
* location: Columbus, OH USA
* Homepage: [http://www.bgsc.org link]

= Publications =
[http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=search&db=pubmed&term=%22Zeigler%2DDR%22%5Bau%5D&dispmax=50 Pubmed]

= Main research interests =
The Bacillus Genetic Stock Center; Bacillus taxonomy and phylogenetics; Bacillus genomics

= Open positions =

Labs working on Bacillus

2009-04-30T14:54:29Z

Dzeigler:

This is a partial list of groups working with ''Bacillus subtilis'':

* [[Alessandra Albertini]]
* [[Arthur Aronson]]
* [[Stephane Aymerich]]
* [[Imrich Barak]]
* [[David Bechhofer]]
* [[Sabine Brantl]]
* [[Erhard Bremer]]
* [[Richard Brennan]]
* [[Ciaran Condon]]
* [[Simon Cutting]]
* [[Isabel de Sa-Nogueira]]
* [[Nathalie Declerck]]
* [[Kevin Devine]]
* [[Josef Deutscher]]
* [[Jeff Errington]]
* [[Jan Maarten van Dijl]]
* [[Susan Fisher]]
* [[Yasutaro Fujita]]
* [[Anne Galinier]]
* [[Boris Görke]]
* [[Peter Graumann]]
* [[Leendert Hamoen]]
* [[Elisabeth Härtig]]
* [[Roland Hartmann]]
* [[Colin Harwood]]
* [[Michael Hecker]]
* [[Lars Hederstedt]]
* [[John Helmann]]
* [[Tina Henkin]]
* [[Adriano Henriques]]
* [[Wolfgang Hillen]]
* [[Laurent Janniere]]
* [[Hanne Jarmer]]
* [[Mark J. Jedrzejas]]
* [[Oscar Kuipers]]
* [[Rick Lewis]]
* [[Thorsten Mascher]]
* [[Ivan Mijakovic]]
* [[Anne Moir]]
* [[Philippe Noirot]]
* [[Naotake Ogasawara]]
* [[Harald Putzer]]
* [[Milton H. Saier]]
* [[Margarita Salas]]
* [[Uwe Sauer]]
* [[Wolfgang Schumann]]
* [[Linc Sonenshein]]
* [[Jörg Stülke]]
* [http://subtiwiki.uni-goettingen.de/wiki/index.php/User:Jwveening Jan-Willem Veening]
* [[Uwe Völker]]
* [[Claes von Wachenfeldt]]
* [[Thomas Wiegert]]
* [[Tony Wilkinson]]
* [[Wade Winkler]]
* [[Daniel R. Zeigler]]
* [[Peter Zuber]]