SubtiWiki - User contributions [en]

File:SubtiWiki id mapping.xls

2010-12-10T15:52:31Z

WikiSysop:

Template:RegulonTable

2010-12-09T21:45:04Z

WikiSysop: Protected "Template:RegulonTable" ([edit=sysop] (indefinite) [move=sysop] (indefinite))

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Regulator'''
|
{{{Regulator}}}
|-
|colspan="2" style="background:#FAF8CC;" align="center"|
* '''[[regulons|Overview on the regulons (wiki page)]]'''
* '''[[Media:regulons.xls|Overview on the regulons (Excel file)]]'''
|}

Template:RegulonTable

2010-12-09T21:44:39Z

WikiSysop:

Template:RegulonTable

2010-12-09T21:39:49Z

WikiSysop:

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Regulator'''
|
{{{Regulator}}}
|-
|colspan="2" style="background:#FAF8CC;" align="center"|
* '''[[regulons|Overview on the regulons (wiki page)]]'''
* '''[[File:regulons.xls|Overview on the regulons (Excel file)]]'''
|}

Template:RegulonTable

2010-12-09T21:39:32Z

WikiSysop:

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Regulator'''
|
{{{Regulator}}}
|-
|colspan="2" style="background:#FAF8CC;" align="center"|
* '''[[regulons|Overview on the regulons (wiki page)]]'''
* '''[[File:regulons.xls Overview on the regulons (Excel file)]]'''
|}

Template:RegulonTable

2010-12-09T21:38:30Z

WikiSysop:

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Regulator'''
|
{{{Regulator}}}
|-
|colspan="2" style="background:#FAF8CC;" align="center"|
* '''[[regulons|Overview on the regulons (wiki page)]]'''
* '''[[File:regulons.xls|Overview on the regulons (Excel file)]]'''
|}

Template:RegulonTable

2010-12-09T21:38:20Z

WikiSysop:

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Regulator'''
|
{{{Regulator}}}
|-
|colspan="2" style="background:#FAF8CC;" align="center"|
* '''[[regulons|Overview on the regulons (wiki page)]]'''
* '''[[[[File:regulons.xls|Overview on the regulons (Excel file)]]'''
|}

Template:CategoryTree2

2010-12-09T21:19:38Z

WikiSysop:

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Parent category'''
|
{{{Parents}}}
|-
|style="background:#ABCDEF;" align="center"| '''Neighbouring categories''' ||
{{{Neighbours}}}
|-
|style="background:#ABCDEF;" align="center"| '''Related categories''' ||
{{{Related}}}
|-
|colspan="2" style="background:#FAF8CC;" align="center"|
* '''[[Media:overview_on_the_categories.xls|Overview on the categories (Excel file)]]'''
* '''[[Media:all_genes_and_their_categories.xls|All genes and their categories (Excel file)]]'''
|}

File:Overview on the categories.xls

2010-12-09T21:18:44Z

WikiSysop: An overview in Excel of all categories in SubtiWiki, without the genes in each category.

An overview in Excel of all categories in SubtiWiki, without the genes in each category.

Template:CategoryTree

2010-12-09T21:12:24Z

WikiSysop:

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Parent categories'''
|
{{{Parents}}}
|-
|style="background:#ABCDEF;" align="center"| '''Neighbouring categories''' ||
{{{Neighbours}}}
|-
|style="background:#ABCDEF;" align="center"| '''Related categories''' ||
{{{Related}}}
|-
|colspan="2" style="background:#FAF8CC;" align="center"|
* '''[[Media:overview_on_the_categories.xls|Overview on the categories (Excel file)]]'''
* '''[[Media:all_genes_and_their_categories.xls|All genes and their categories (Excel file)]]'''
|}

Template:CategoryTree

2010-12-09T21:09:51Z

WikiSysop: Reverted edits by WikiSysop (talk) to last revision by Lflorez

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Parent categories'''
|
{{{Parents}}}
|-
|style="background:#ABCDEF;" align="center"| '''Neighbouring categories''' ||
{{{Neighbours}}}
|-
|style="background:#ABCDEF;" align="center"| '''Related categories''' ||
{{{Related}}}
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''[http://www.subtiwiki.uni-goettingen.de/otherFiles/classification.zip Download an Excel file] with all the categories'''
|}

Template:CategoryTree

2010-12-09T21:09:26Z

WikiSysop:

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Parent categories'''
|
{{{Parents}}}
|-
|style="background:#ABCDEF;" align="center"| '''Neighbouring categories''' ||
{{{Neighbours}}}
|-
|style="background:#ABCDEF;" align="center"| '''Related categories''' ||
{{{Related}}}
|-
|colspan="2" style="background:#FAF8CC;" align="center"|
* '''[http://www.subtiwiki.uni-goettingen.de/otherFiles/overview_on_the_categories.xls Overview on the categories (Excel file)]'''
* '''[[Media:all_genes_and_their_categories.xls|All genes and their categories (Excel file)]]'''
|}

Template:CategoryTree

2010-12-09T21:09:13Z

WikiSysop:

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Parent categories'''
|
{{{Parents}}}
|-
|style="background:#ABCDEF;" align="center"| '''Neighbouring categories''' ||
{{{Neighbours}}}
|-
|style="background:#ABCDEF;" align="center"| '''Related categories''' ||
{{{Related}}}
|-
|colspan="2" style="background:#FAF8CC;" align="center"|
* '''[http://www.subtiwiki.uni-goettingen.de/otherFiles/overview_on_the_categories.xls Overview on the categories (Excel file)]'''
* '''[[Media:all_genes_and_their_categories.xls|All genes and their categories (Excel file)]'''
|}

Template:CategoryTree2

2010-11-24T17:58:47Z

WikiSysop:

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Parent category'''
|
{{{Parents}}}
|-
|style="background:#ABCDEF;" align="center"| '''Neighbouring categories''' ||
{{{Neighbours}}}
|-
|style="background:#ABCDEF;" align="center"| '''Related categories''' ||
{{{Related}}}
|-
|colspan="2" style="background:#FAF8CC;" align="center"|
* '''[http://www.subtiwiki.uni-goettingen.de/otherFiles/overview_on_the_categories.xls Overview on the categories (Excel file)]'''
* '''[http://www.subtiwiki.uni-goettingen.de/otherFiles/all_genes_and_their_categories.xls All genes and their categories (Excel file)]'''
|}

Template:CategoryTree

2010-11-24T17:57:45Z

WikiSysop:

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Parent categories'''
|
{{{Parents}}}
|-
|style="background:#ABCDEF;" align="center"| '''Neighbouring categories''' ||
{{{Neighbours}}}
|-
|style="background:#ABCDEF;" align="center"| '''Related categories''' ||
{{{Related}}}
|-
|colspan="2" style="background:#FAF8CC;" align="center"|
* '''[http://www.subtiwiki.uni-goettingen.de/otherFiles/overview_on_the_categories.xls Overview on the categories (Excel file)]'''
* '''[http://www.subtiwiki.uni-goettingen.de/otherFiles/all_genes_and_their_categories.xls All genes and their categories (Excel file)]'''
|}

QdoI

2010-11-24T09:39:21Z

WikiSysop: Reverted edits by Awynalaxa (talk) to last revision by Umaeder

* '''Description:''' Fe-containing quercetin 2,3-dioxygenase 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''qdoI''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yxaG ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || Fe-containing quercetin 2,3-dioxygenase
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || resistance to plant product quercetin
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 37,4 kDa, 5.562
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1011 bp, 337 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yxaH]]'', ''[[yxaF]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB16035]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:yxaG_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:''' BSU39980

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11109]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' Quercetin + O2 = 2-(3,4-dihydroxybenzoyloxy)-4,6-dihydroxybenzoate + CO + H+ (according to Swiss-Prot)

* '''Protein family:'''bicupin family

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

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

* '''Cofactor(s):''' Fe(2+)

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

* '''Interactions:'''

* '''Localization:'''

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=2H0V 2H0V]

* '''UniProt:''' [http://www.uniprot.org/uniprot/P42106 P42106]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU39980]

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

=== Additional information===

=Expression and regulation=
* '''Operon:''' ''[[qdoI]]-[[yxaH]]'' {{PubMed|10746760}}

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

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

* '''Regulatory mechanism:'''
** [[LmrA]]: transcription repression {{PubMed|15317768}}
** [[YxaF]]: transcription repression {{PubMed|17483215}}

* '''Additional information:'''
** major regulator: [[YxaF]] {{PubMed|17483215}}

=Biological materials =

* '''Mutant:'''

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=

<pubmed>17483215,14741339,,17483215,15317768,10746760, 20460727,14697267,, </pubmed>

[[Category:Protein-coding genes]]

Bernard Joris

2010-11-24T09:39:10Z

WikiSysop: Reverted edits by Awynalaxa (talk) to last revision by Jstuelk

= Lab head: Bernard Joris=
'''Additional information'''
* [mailto:bjoris@ulg.ac.be send mail]
* location: Liege, Belgium
* Homepage: [http://www.cip.ulg.ac.be CIP]

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

= Main research interests =
Development of new tools for genetic manipulations 
Signal trasduction 
Peptidoglycan metabolism 
Cell wall stress 
Lipopeptides 
Biofilms 
Plant growth promotion 
Induction of plant systemic resistance 

= Other laboratory members =
[mailto:abrans@ulg.ac.be Alain Brans] [http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=search&db=pubmed&term=%22Brans%2BA%22%5Bau%5D&dispmax=50 Pubmed] 
[mailto:michael.delmarcelle@ulg.ac.be Michael Delmarcelle] [http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=search&db=pubmed&term=%22Delmarcelle%2BM%22%5Bau%5D&dispmax=50 Pubmed] 
[mailto:cduez@ulg.ac.be Colette Duez] [http://apps.isiknowledge.com/summary.do?qid=14&product=UA&SID=Q2DMP4DMAcbeELd9oLG&search_mode=GeneralSearch Web of Science] 

= '''Back to [[Labs working on Bacillus]]''' =

SinR

2010-11-24T09:39:09Z

WikiSysop: Reverted edits by Awynalaxa (talk) to last revision by Jstuelk

* '''Description:''' transcriptional regulator of post-exponential-phase responses genes 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''sinR''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''sin, flaD ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || transcriptional regulator of post-exponential-phase responses genes
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || control of [[biofilm formation]]
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm], [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 12 kDa, 7.177
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 333 bp, 111 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[sinI]]'', ''[[tasA]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB14392]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:sinR_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:''' BSU24610

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10754]

=== Additional information===

=Categories containing this gene/protein=
[[biofilm formation]], [[transcription factor]], [[Spo0A regulon]]

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' transcription repressor of biofilm genes, acts as co-repressor for [[SlrR]] {{PubMed|20351052}}

* '''Protein family:'''

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

=== Genes controlled by SinR ===

* '''Activation by SinR:''' ''[[comK]]''

* '''Repression by SinR:''' ''[[aprE]], [[epsA]]-[[epsB]]-[[epsC]]-[[epsD]]-[[epsE]]-[[epsF]]-[[epsG]]-[[epsH]]-[[epsI]]-[[epsJ]]-[[epsK]]-[[epsL]]-[[epsM]]-[[epsN]]-[[epsO]]'' {{PubMed|15661000}},[[kinB]], ''[[rapG]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/16430695 PubMed], ''[[sigD]]'','' [[spo0A]]'',''[[spoIIAA]]-[[spoIIAB]]-[[sigF]]'', ''[[spoIIE]]'', ''[[spoIIGA]]-[[sigE]]-[[sigG]]'', ''[[spoVG]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/16430695 PubMed], ''[[yqxM]]-[[sipW]]-[[tasA]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/16430695 PubMed], ''[[yvgN]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/16430695 PubMed], ''[[ywbD]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/16430695 PubMed]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

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

* '''Effectors of protein activity:''' [[SinI]] and [[SlrA]] are antagonists to [[SinR]] {{PubMed|19788541}}, [[SlrR]] is also antagonist of [[SinR]] {{PubMed|20351052}}

* '''Interactions:''' [[SlrA]]-[[SinR]] {{PubMed|19788541}}, [[SlrR]]-[[SinR]] {{PubMed|20351052}}, [[SinR]]-[[ScoC]], [[SinR]]-[[SinI]]

* '''Localization:'''

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1B0N 1B0N] (complex [[SinR]]-[[SinI]])

* '''UniProt:''' [http://www.uniprot.org/uniprot/P06533 P06533]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24610]

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

=== Additional information===

=Expression and regulation=

* '''Operon:'''
** ''[[sinI]]-[[sinR]]'' {{PubMed|3125149}}
** ''[[sinR]]'' {{PubMed|3125149}}

* '''[[Sigma factor]]:'''
** ''[[sinI]]'': [[SigA]] {{PubMed|3125149}}
** ''[[sinR]]'': [[SigA]] {{PubMed|3125149}}

* '''Regulation:'''
** ''[[sinI]]'': repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/11751836 PubMed]
** ''[[sinI]]'': repressed during exponential growth ([[ScoC]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1906467,11751836 PubMed]
** ''[[sinI]]'': repressed during logrithmic growth ([[AbrB]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/7635837,11751836 PubMed]

* '''Regulatory mechanism:'''
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/11751836 PubMed]
** [[ScoC]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1906467,11751836 PubMed]
** [[AbrB]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/7635837,11751836 PubMed]

* '''Additional information:'''

=Biological materials =

* '''Mutant:''' TMB079 ''sinR::spec'', GP736 (tetR), available in [[Stülke]] lab

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''FLAG-tag construct:''' GP960 (spc, based on [[pGP1331]]), available in the [[Stülke]] lab

* '''Antibody:'''

=Labs working on this gene/protein=

=Your additional remarks=

=References=
==Reviews==
<pubmed>20395361 20541494 </pubmed>

==Original publications==
<pubmed>8955328,15661000,8878039,16923912,15104138,16430695,16430696,18047568,18430133,11751836,1906467,11751836,7635837,11751836, 19201793, 10547280, 15104138, 9799632 19788541 19898538 3125149 8932324 20351052 20923420 8422983 </pubmed>

[[Category:Protein-coding genes]]

RbgA

2010-11-24T09:38:51Z

WikiSysop: Reverted edits by Awynalaxa (talk) to last revision by Jstuelk

* '''Description:''' assembly of the 50S subunit of the ribosome 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''rbgA ''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ylqF''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || GTPase
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || ribosome assembly
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 31 kDa, 9.528
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 846 bp, 282 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[rplS]]'', ''[[rnhB]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB13478]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:ylqF_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:''' BSU16050

===Phenotypes of a mutant ===

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

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13405]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' Binds and hydrolyzes GTP and readily exchanges GDP for GTP

* '''Protein family:''' MTG1 subfamily (according to Swiss-Prot) Era/Obg family

* '''Paralogous protein(s):''' [[Era]], [[Obg]], [[YphC]], [[YsxC]], [[RbgA]], [[YqeH]], [[ThdF]], [[YyaF]], [[YnbA]]

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

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

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

* '''Interactions:'''

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

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1PUJ 1PUJ]

* '''UniProt:''' [http://www.uniprot.org/uniprot/O31743 O31743]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU16050]

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

=== Additional information===

=Expression and regulation=

* '''Operon:'''

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

* '''Regulation:'''

* '''Regulatory mechanism:'''

* '''Additional information:'''

=Biological materials =

* '''Mutant:'''

* '''Expression vector:'''

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

[[Naotake Ogasawara]], Nara, Japan

=Your additional remarks=

=References=
==Reviews==
<pubmed> 19575570 </pubmed>
==Original publications==
<pubmed>12427945, 16390447 16997968 </pubmed>

[[Category:Protein-coding genes]]

KinB

2010-11-24T09:38:34Z

WikiSysop: Reverted edits by Awynalaxa (talk) to last revision by Adr

* '''Description:''' [[two-component systems|two-component]] sensor kinase, phosphorylates [[Spo0F]], part of the [[phosphorelay]] 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''kinB''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || [[two-component systems|two-component]] sensor kinase
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || initiation of sporulation
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/phosphorelay.html Phosphorelay]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 47 kDa, 6.682
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1287 bp, 429 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[patB]]'', ''[[kapB]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB15134]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|-
|-
|colspan="2" | '''Genetic context''' [[Image:kinB_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:''' BSU31450

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10745]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' autophosphorylation, phosphorylation of [[Spo0F]]

* '''Protein family:'''

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

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:''' six transmembrane segments, C-terminal histidine phosphotransferase domain

* '''Modification:''' autophosphorylation on a His residue

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

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

* '''Interactions:''' [[KinB]]-[[Sda]], [[KinB]]-[[Spo0F]]

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

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=3D36 3D36] (from G. stearothermophilus, complex with Sda)

* '''UniProt:''' [http://www.uniprot.org/uniprot/Q08430 Q08430]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU31450]

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

=== Additional information===

=Expression and regulation=
* '''Operon:''' ''[[kinB]]-[[kapB]]'' {{PubMed|8497199}}

* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|8497199}}

* '''Regulation:'''
** repressed during growth in the presence of branched chain amino acids ([[CodY]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/12618455 PubMed]
** repressed during logrithmic growth ([[AbrB]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/7592498 PubMed]

* '''Regulatory mechanism:'''
** [[CodY]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/12618455 PubMed]
** [[AbrB]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/7592498 PubMed]

* '''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>8576055,16166384,9299348,8497199,10094672,9426145,11069677,12618455,11902725,12618455,7592498, </pubmed>

[[Category:Protein-coding genes]]

GlgA

2010-11-24T09:38:25Z

WikiSysop: Reverted edits by Awynalaxa (talk) to last revision by Jstuelk

* '''Description:''' glycogen synthase (ADPGlc) 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''glgA''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || glycogen synthase (ADPGlc)
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || glycogen biosynthesis
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 55 kDa, 5.155
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1452 bp, 484 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[glgP]]'', ''[[glgD]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB15073]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:glgA_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:''' BSU30950

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10910]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' ADP-glucose + (1,4-alpha-D-glucosyl)(n) = ADP + (1,4-alpha-D-glucosyl)(n+1) (according to Swiss-Prot)

* '''Protein family:''' Bacterial/plant glycogen synthase subfamily (according to Swiss-Prot)

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

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

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

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

* '''Interactions:'''

* '''Localization:'''

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P39125 P39125]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU30950]

* '''E.C. number:''' [http://www.expasy.org/enzyme/2.4.1.21 2.4.1.21]

=== Additional information===

=Expression and regulation=
* '''Operon:''' ''[[glgB]]-[[glgC]]-[[glgD]]-[[glgA]]-[[glgP]]'' {{PubMed|8145641}}

* '''[[Sigma factor]]:''' [[SigE]] {{PubMed|8145641}}

* '''Regulation:'''
** expressed early during sporulation in the mother cell ([[SigE]]) {{PubMed|8145641}}

* '''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> 8145641</pubmed>
[[Category:Protein-coding genes]]

Pgm

2010-11-24T09:38:15Z

WikiSysop: Reverted edits by Awynalaxa (talk) to last revision by Jstuelk

* '''Description:''' phosphoglycerate mutase, glycolytic / gluconeogenic enzyme 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''pgm''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''gpmI''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || 2,3-bisphosphoglycerate-independent phosphoglycerate mutase
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || enzyme in glycolysis / gluconeogenesis
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 56,1 kDa, 5.21
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1533 bp, 511 amino acids
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[eno]]'', ''[[tpi]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB15396]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:pgm_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:''' BSU33910

===Phenotypes of a mutant ===

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

=== Database entries ===

* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/cggR-gapA-pgk-tpiA-pgm-eno.html]

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10898]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' 2-phospho-D-glycerate = 3-phospho-D-glycerate (according to Swiss-Prot)

* '''Protein family:''' BPG-independent phosphoglycerate mutase family (according to Swiss-Prot)

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

=== Extended information on the protein ===

* '''Kinetic information:''' Reversible Michaelis-Menten [http://www.ncbi.nlm.nih.gov/pubmed/33963 PubMed]

* '''Domains:'''

* '''Modification:''' phosphorylation on Ser-62 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed], [http://www.ncbi.nlm.nih.gov/pubmed/17726680 PubMed]

* '''Cofactor(s):''' Mn2+

* '''Effectors of protein activity:'''
** Inhibited by diverse divalent heavy-metal ions, EDTA and 2,3-butanedione [http://www.ncbi.nlm.nih.gov/sites/entrez/33963 PubMed]
** 2,3-Diphosphoglycerate has NO role on this enzyme regulation [http://www.ncbi.nlm.nih.gov/sites/entrez/33963 PubMed]

* '''Interactions:''' Pgm-[[PfkA]]

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

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1EJJ 1EJJ] (Geobacillus stearothermophilus, complex with 3-phosphoglycerate), [http://www.rcsb.org/pdb/explore.do?structureId=1EQJ 1EQJ] (Geobacillus stearothermophilus, complex with 2-phosphoglycerate), ''Geobacillus stearothermophilus'', complex with 2-phosphoglycerate [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=16359 NCBI], ''Geobacillus stearothermophilus'', complex with 3-phosphoglycerate [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=15578 NCBI]

* '''UniProt:''' [http://www.uniprot.org/uniprot/P39773 P39773]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU33910]

* '''E.C. number:''' [http://www.expasy.org/enzyme/5.4.2.1 5.4.2.1]]

=== Additional information===

=Expression and regulation=

* '''Operon:'''
** ''[[cggR]]-[[gapA]]-[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]'' {{PubMed|11489127}}
** ''[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]'' {{PubMed|11489127}}

* '''Sigma factor:''' [[SigA]] {{PubMed|11489127}}

* '''Regulation:'''
** expression activated by glucose (3.3 fold) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed]
** ''[[cggR]]'': induced by glycolytic substrates [[CggR]] {{PubMed|11489127}}
** ''[[pgk]]'': constitutive {{PubMed|11489127}}

* '''Regulatory mechanism:''' transcription repression by [[CggR]] {{PubMed|11489127}}

* '''Additional information:'''

=Biological materials =
* '''Mutant:'''
** GP593 (''pgm''::''cat''), available in [[Stülke]] lab
** GP598 (''pgm''::''erm''), available in [[Stülke]] lab
** GP698 (''pgm''-''eno''::cat), available in [[Stülke]] lab

* '''Expression vector:'''
** pGP1425 (expression of ''pgm'' in ''B. subtilis'', in [[pBQ200]]), available in [[Stülke]] lab
** pGP1500 (expression of ''pgm'' and ''eno'' in ''B. subtilis'', in [[pBQ200]]), available in [[Stülke]] lab
** pGP1101 (N-terminal His-tag, in [[pWH844]]), available in [[Stülke]] lab
** pGP396 (Pgm-S62A, N-terminal His-tag, in [[pWH844]]), available in [[Stülke]] lab
** pGP92 (N-terminal Strep-tag, for [[SPINE]], expression in B. subtilis, in [[pGP380]]), available in [[Stülke]] lab

* '''lacZ fusion:'''

* '''GFP fusion:'''

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

* '''Antibody:'''

=Labs working on this gene/protein=

[[Stülke|Jörg Stülke]], University of Göttingen, Germany [http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]

[[Jedrzejas|Mark J. Jedrzejas]], Research Center Oakland, CA, USA [http://www.chori.org/Principal_Investigators/Jedrzejas_Mark_J/jedrzejas_research.html Homepage]

=Your additional remarks=

=References=

<pubmed>11514674,17085493,10764795,8215434,10747010,11712498,9830105,10388626,8636019,11827481,16479537, 12850135,17726680,17505547, 8021172,11489127, 10388626,10747010, 10764795, 11712498, 12729763, 17085493, 17218307 33963 </pubmed>

[[Category:Protein-coding genes]]

YesZ

2010-11-24T09:38:01Z

WikiSysop: Reverted edits by Awynalaxa (talk) to last revision by Jstuelk

* '''Description:''' beta-galactosidase 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''yesZ''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || beta-galactosidase
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 73 kDa, 5.5
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1989 bp, 663 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yesY]]'', ''[[yetA]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB12527]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:yesZ_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:''' BSU07080

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12860]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' Hydrolysis of terminal non-reducing beta-D-galactose residues in beta-D-galactosides (according to Swiss-Prot)

* '''Protein family:''' glycosyl hydrolase 42 family (according to Swiss-Prot)

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

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

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

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

* '''Interactions:'''

* '''Localization:'''

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/O31529 O31529]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU07080]

* '''E.C. number:''' [http://www.expasy.org/enzyme/3.2.1.23 3.2.1.23]

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[yesS]]-[[yesT]]-[[yesU]]-[[yesV]]-[[yesW]]-[[yesX]]-[[yesY]]-[[yesZ]]'' {{PubMed|19651770}}

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

* '''Regulation:''' induced by pectin ([[YesS]]) {{PubMed|19651770}}

* '''Regulatory mechanism:''' [[YesS]]: transcriptional activation {{PubMed|19651770}}

* '''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> 19651770 17449691 17056685 </pubmed>

[[Category:Protein-coding genes]]

LipA

2010-11-24T09:37:52Z

WikiSysop: Reverted edits by Awynalaxa (talk) to last revision by Adr

* '''Description:''' [[trigger enzymes|trigger enzyme]]: lipoic acid synthase and regulator of ''[[comEA|comE]]'' operon expression 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''lipA''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yutB ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || Yes {{PubMed|19820084}}
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || [[trigger enzymes|trigger enzyme]]: lipoic acid synthase
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || lipid metabolism, required for the synthesis of branched-chain amino acids
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 33 kDa, 8.251
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 894 bp, 298 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yutC]]'', ''[[lytH]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB15223]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:lipA_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:''' BSU32330

===Phenotypes of a mutant ===

reduced transformation efficiency [http://www.ncbi.nlm.nih.gov/sites/entrez/19028902 PubMed], strong inhibition of growth on minimal media {{PubMed|19820084}}

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG14038]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' Protein N(6)-(octanoyl)lysine + 2 sulfur + 2 S-adenosyl-L-methionine = protein N(6)-(lipoyl)lysine + 2 L-methionine + 2 5'-deoxyadenosine (according to Swiss-Prot) Triacylglycerol + H2O = diacylglycerol + a carboxylate (according to Swiss-Prot) required for ''[[comEA]]'' transcription [http://www.ncbi.nlm.nih.gov/sites/entrez/19028902 PubMed]

* '''Protein family:''' Lipoyl synthase family (according to Swiss-Prot) AB hydrolase superfamily (according to Swiss-Prot)

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

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

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

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

* '''Interactions:'''

* '''Localization:''' extracellular (signal peptide) [http://www.ncbi.nlm.nih.gov/pubmed/18957862 PubMed]

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/O32129 O32129]
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU32330]

* '''E.C. number:''' [http://www.expasy.org/enzyme/2.8.1.8 2.8.1.8] 3.1.1.3]

=== Additional information===

=Expression and regulation=

* '''Operon:'''

* '''Sigma factor:'''

* '''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>18957862 19028902, 19820084 </pubmed>

[[Category:Protein-coding genes]]

ComN

2010-11-24T09:37:39Z

WikiSysop: Reverted edits by Awynalaxa (talk) to last revision by Jstuelk

* '''Description:''' mediates post-transcriptional control of ''[[comEA|comE]]'' operon expression 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''comN ''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yrzD''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || post-transcriptional regulator of ''[[comEA|comE]]'' expression
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || regulation of competence and DNA uptake
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 11 kDa, 4.622
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 294 bp, 98 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[secDF]]'', ''[[spoVB]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB14726]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:yrzD_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:''' BSU27660

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13814]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

* '''Catalyzed reaction/ biological activity:''' post-transcriptional control of ''[[comEA]]'' expression [http://www.ncbi.nlm.nih.gov/sites/entrez/19028902 PubMed]

* '''Protein family:'''

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

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

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

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

* '''Interactions:'''

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

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/O32049 O32049]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU27660]

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

=== Additional information===

=Expression and regulation=

* '''Operon:'''

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

* '''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>19028902,,19028902, </pubmed>

[[Category:Protein-coding genes]]

ComEA

2010-11-24T09:37:27Z

WikiSysop: Reverted edits by Awynalaxa (talk) to last revision by Adr

* '''Description:''' exogenous DNA-binding protein 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''comEA''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''comD ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || exogenous DNA-binding protein
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || competence
|-
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: [http://subtiwiki.uni-goettingen.de/pathways/gene_regulation_nucleotides.html Nucleotides (regulation)]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 21 kDa, 4.824
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 615 bp, 205 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[comEB]]'', ''[[comER]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB14501]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:comEA_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:''' BSU25590

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10480]

=== 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:'''

=== Database entries ===

* '''Structure:''' [http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=2DUY 2DUY] (from ''Thermus thermophilus hb8'', 37% identity, 60% similarity)

* '''UniProt:''' [http://www.uniprot.org/uniprot/P39694 P39694]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU25590]

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

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''[[comEA]]-[[comEB]]-[[comEC]]'' {{PubMed|7968523,19028902}}

* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|7968523}}

* '''Regulation:'''

* '''Regulatory mechanism:'''
** post-translational control by [[ComN]] {{PubMed|19028902}}
** ''[[yutB]]'' is required for transcription {{PubMed|19028902}}
** [[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=

<pubmed>9987128,11814663,7768800,16751195,7968523,17630974,,19028902, </pubmed>

[[Category:Protein-coding genes]]

ComER

2010-11-24T09:37:09Z

WikiSysop: Reverted edits by Awynalaxa (talk) to last revision by Jstuelk

* '''Description:''' non-essential gene for competence 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''comER''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''comD, comED ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || putative pyrroline-5'-carboxylate reductase
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || genetic compentence
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 30 kDa, 6.183
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 819 bp, 273 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[comEA]]'', ''[[yqeM]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB14502]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:comER_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:''' BSU25600

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10479]

=== Additional information===

=The protein=

=== Basic information/ Evolution ===

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

* '''Protein family:''' pyrroline-5-carboxylate reductase family (according to Swiss-Prot)

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

=== Extended information on the protein ===

* '''Kinetic information:'''

* '''Domains:'''

* '''Modification:'''

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

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

* '''Interactions:'''

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

=== Database entries ===

* '''Structure:'''

* '''UniProt:''' [http://www.uniprot.org/uniprot/P39696 P39696]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU25600]

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

=== Additional information===

=Expression and regulation=

* '''Operon:''' ''comER'' [http://www.ncbi.nlm.nih.gov/sites/entrez/7968523 PubMed]

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

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

* '''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>,11814663,7968523,11418582,12107147, </pubmed>

[[Category:Protein-coding genes]]

Two-component systems

2010-11-24T09:34:17Z

WikiSysop: Reverted edits by Awynalaxa (talk) to last revision by Jstuelk

Two component systems are signal transduction systems that consist of a sensor kinase and a response regulator (usually a [[transcription factors|transcription factor]]). The kinase autophosphorylates on a His residue (more preciely, one subunit of the dimeric kinase phosphorylates the His residue of the other subunit), and the phosphate group can then be transferred to an aspartate residue in the cognate response regulator. Some response regulators can also autophosphorylate using acety-phosphate as the phosphate donor.
More complex signal transduction systems of this class are called [[phosphorelay]]. The paradigm for a [[phosphorelay]] is the pathway leading to the phosphorylation of [[Spo0A]].

==Two-component systems in ''B. subtilis'' (kinase, regulator)==
* NarL-family
** [[ComP]], [[ComA]]
** [[DegS]], [[DegU]]
** [[DesK]], [[DesR]]
** [[LiaS]], [[LiaR]]
** [[YdfH]], [[YdfI]]
** [[YfiJ]], [[YfiK]]
** [[YhcY]], [[YhcZ]]
** [[YvfT]], [[YvfU]]
** [[YxjM]], [[YxjL]]

* OmpR family
** [[BceS]], [[BceR]]
** [[CssS]], [[CssR]]
** [[NatK]], [[NatR]]
** [[PhoR]], [[PhoP]]
** [[ResE]], [[ResD]]
** [[WalK]], [[WalR]]: the only essential two-component system!
** [[YbdK]], [[YbdJ]]
** [[YcbM]], [[YcbL]]
** [[YclK]], [[YclJ]]
** [[YkoH]], [[YkoG]]
** [[YrkQ]], [[YrkP]]
** [[YvcQ]], [[YvcP]]
** [[YvrG]], [[YvrHb]]
** [[YxdK]], [[YxdJ]]

* CheY family
** [[CheA]], [[CheY]]

* DctR family
** [[CitS]], [[CitT]]
** [[DctS]], [[DctR]]
** [[GlnK]], [[GlnL]]
** [[MalK]], [[MalR]]

* LytT family
** [[LytS]], [[LytT]]
** [[YesM]], [[YesN]]
** [[YwpD]] (orphan kinase)

* Orphan response regulator
** [[YneI]]

==The [[phosphorelay]]==
* Kinases
** [[KinA]]
** [[KinB]]
** [[KinC]]
** [[KinD]]
** [[KinE]]

* Phosphotransferases
** [[Spo0F]]
** [[Spo0B]]

* The ultimate target
** [[Spo0A]]

==Related lists==
* [[phosphorelay]]
* [[response regulator aspartate phosphatases]]
* [[phosphoproteins]]
* [[protein kinases and phosphatases]]

==Reviews==
<pubmed>17338439 19575571 11406410 10966457 10932244 17158704 10094672 11489844 1664534 17433693 10745001 17913492 18832064 19943903 20117042 18076326 20080056 20133181 20133179 21051349 </pubmed>

Easter egg

2010-11-09T14:44:06Z

WikiSysop:

Biofilms are the result of the multicellular lifestyle of ''B. subtilis''. They are characterized by the formation of a matrix polysaccharide and an amyloid-like protein, [[TasA]].

{{CategoryTree
|Parents=
* 4. [[Life styles]]
** 4.2 [[Processes activated during stationary phase]]
|Neighbours=
* 4.2.1 [[Sporulation and germination]]
* 4.2.2 [[Easter egg|Biofilm formation]]
* 4.2.3 [[Coping with stress]]
* 4.2.4 [[Life styles -- miscellaneous]]
|Related=
no
|}}

__TOC__

 

==[http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm formation in ''Subti''Pathways]==

==Labs working on biofilm formation==
* [[Daniel Kearns]]
* [[Oscar Kuipers]]
* [[Beth Lazazzera]]
* [[Richard Losick]]
* [[Nicola Stanley-Wall]]

==Key genes and operons involved in biofilm formation==
* matrix polysaccharide synthesis:
** ''[[epsA]]-[[epsB]]-[[epsC]]-[[epsD]]-[[epsE]]-[[epsF]]-[[epsG]]-[[epsH]]-[[epsI]]-[[epsJ]]-[[epsK]]-[[epsL]]-[[epsM]]-[[epsN]]-[[epsO]]''
* amyloid protein synthesis
** ''[[yqxM]]-[[sipW]]-[[tasA]]''
* regulation
** [[SlrR]]
** [[SlrA]]
** [[SinR]]
** [[SinI]]
** [[PtkA]]
** [[TkmA]]
** [[PtpZ]]
** [[DegU]]
** [[RacX]]
* biofilm disassembly
** [[YlmE]]
* other proteins required for biofilm formation
** [[SpeA]]
** [[YmcA]]
** [[YxaB]]

==Key reviews==
<pubmed>19054118 19054118 16787201 9891794 20890834 </pubmed>
* additional reviews: {{PubMed|20735481}}

Easter egg

2010-11-09T14:43:35Z

WikiSysop:

Biofilms are the result of the multicellular lifestyle of ''B. subtilis''. They are characterized by the formation of a matrix polysaccharide and an amyloid-like protein, [[TasA]].

{{CategoryTree
|Parents=
* 4. [[Life styles]]
** 4.2 [[Processes activated during stationary phase]]
|Neighbours=
* 4.2.1 [[Sporulation and germination]]
* 4.2.2 [[Biofilm formation]]
* 4.2.3 [[Coping with stress]]
* 4.2.4 [[Life styles -- miscellaneous]]
|Related=
no
|}}

__TOC__

 

==[http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm formation in ''Subti''Pathways]==

==Labs working on biofilm formation==
* [[Daniel Kearns]]
* [[Oscar Kuipers]]
* [[Beth Lazazzera]]
* [[Richard Losick]]
* [[Nicola Stanley-Wall]]

==Key genes and operons involved in biofilm formation==
* matrix polysaccharide synthesis:
** ''[[epsA]]-[[epsB]]-[[epsC]]-[[epsD]]-[[epsE]]-[[epsF]]-[[epsG]]-[[epsH]]-[[epsI]]-[[epsJ]]-[[epsK]]-[[epsL]]-[[epsM]]-[[epsN]]-[[epsO]]''
* amyloid protein synthesis
** ''[[yqxM]]-[[sipW]]-[[tasA]]''
* regulation
** [[SlrR]]
** [[SlrA]]
** [[SinR]]
** [[SinI]]
** [[PtkA]]
** [[TkmA]]
** [[PtpZ]]
** [[DegU]]
** [[RacX]]
* biofilm disassembly
** [[YlmE]]
* other proteins required for biofilm formation
** [[SpeA]]
** [[YmcA]]
** [[YxaB]]

==Key reviews==
<pubmed>19054118 19054118 16787201 9891794 20890834 </pubmed>
* additional reviews: {{PubMed|20735481}}

Template:CategoryTree

2010-11-09T14:40:05Z

WikiSysop: Protected "Template:CategoryTree" ([edit=sysop] (indefinite) [move=sysop] (indefinite))

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Parent categories'''
|
{{{Parents}}}
|-
|style="background:#ABCDEF;" align="center"| '''Neighbouring categories''' ||
{{{Neighbours}}}
|-
|style="background:#ABCDEF;" align="center"| '''Related categories''' ||
{{{Related}}}
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''[http://www.subtiwiki.uni-goettingen.de/otherFiles/classification.zip Download an Excel file] with all the categories'''
|}

MediaWiki:Copyrightwarning2

2009-07-09T06:18:49Z

WikiSysop:

Please note that all contributions to ''Subti''Wiki may be edited, altered, or removed by other contributors.
If you do not want your writing to be edited mercilessly, then do not submit it here. 
You are also promising us that you wrote this yourself, or copied it from a public domain or similar free resource (see $1 for details).
'''Do not submit copyrighted work without permission!'''

== How do I format my text? ==

The toolbar above the text-entry box will aid you in adding wiki markup. To use it, just select the text you want to format and click on the button. The change in your text serves to markup your intended format, so that it is available after you press the '''Save Page''' button. If you need further help, please visit [[Help:Editing|this page ]].

'''Important''': References to scientific articles increase the credibility of your contributions! To add a link to a PubMed article you first need to get its PubMed Identifier (PMID). It can usually be found below the journal name or the abstract. Then, depending on the context, do the following:

* If you are editing the '''References''' section, just add the PMID to the <nowiki><pubmed> </pubmed></nowiki> space. After saving the page, ''Subti''Wiki will extract the full citation of the paper automatically.
* If you are editing another part of the page and want to link your contribution to a paper in PubMed, write <nowiki>{{PubMed|xxxxxx}}</nowiki> where xxxxxx is the PMID you extracted ( e.g. '''<nowiki>{{PubMed|19383706}}</nowiki>''' ). ''Subti''Wiki will automatically convert this text into a link to the corresponding PubMed reference. To add more than one reference, separate the PMIDs using commas and no spaces, as in '''<nowiki>{{PubMed|19383706,16407324}}</nowiki>'''

----

Template:PubMed

2009-07-09T06:17:35Z

WikiSysop: Protected "Template:PubMed" ([edit=sysop] (indefinite) [move=sysop] (indefinite))

[http://www.pubmed.com/{{{1}}} PubMed]

Sandbox

2009-07-09T06:16:29Z

WikiSysop:

{{PubMed|19383706}}

* '''Description:''' similar to ABC transporter (membrane protein) 

{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''yhcI''
|-
|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
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 34 kDa, 6.336
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 939 bp, 313 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yhcH]]'', ''[[cspB]]''
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB12737]+-newId sequences] (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' [[Image:yhcI_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:''' BSU09090

===Phenotypes of a mutant ===

=== Database entries ===

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

* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11587]

=== 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 (according to Swiss-Prot)

=== Database entries ===

* '''Structure:'''

* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P54593 P54593]

* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU09090]

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

=== Additional information===

=Expression and regulation=

* '''Operon:'''

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

* '''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>10092453,, </pubmed>

Template:PubMed

2009-07-09T06:15:52Z

WikiSysop: Created page with '[http://www.pubmed.com/{{{1}}} PubMed]'

[http://www.pubmed.com/{{{1}}} PubMed]

MediaWiki:Copyrightwarning2

2009-07-03T12:14:08Z

WikiSysop:

Please note that all contributions to ''Subti''Wiki may be edited, altered, or removed by other contributors.
If you do not want your writing to be edited mercilessly, then do not submit it here. 
You are also promising us that you wrote this yourself, or copied it from a public domain or similar free resource (see $1 for details).
'''Do not submit copyrighted work without permission!'''

== How do I format my text? ==

The toolbar above the text-entry box will aid you in adding wiki markup. To use it, just select the text you want to format and click on the button. The change in your text serves to markup your intended format, so that it is available after you press the '''Save Page''' button. If you need further help, please visit [[Help:Editing|this page ]].

'''Important''': References to scientific articles increase the credibility of your contributions! To add a link to a PubMed article you first need to get its PubMed Identifier (PMID). It can usually be found below the journal name or the abstract. Then, depending on the context, do the following:

* If you are editing the '''References''' section, just add the PMID to the <nowiki><pubmed> <\pubmed></nowiki> space. After saving the page, ''Subti''Wiki will extract the full citation of the paper automatically.
* If you are editing another part of the page and want to link your contribution to a paper in PubMed, write <nowiki>{{PubMed|xxxxxx}}</nowiki> where xxxxxx is the PMID you extracted ( e.g. '''<nowiki>{{PubMed|19383706}}</nowiki>''' ). ''Subti''Wiki will automatically convert this text into a link to the corresponding PubMed reference. To add more than one reference, separate the PMIDs using commas and no spaces, as in '''<nowiki>{{PubMed|19383706,16407324}}</nowiki>'''

----

MediaWiki:Copyrightwarning2

2009-07-03T12:12:46Z

WikiSysop: Created page with 'Please note that all contributions to ''Subti''Wiki may be edited, altered, or removed by other contributors. If you do not want your writing to be edited mercilessly, then do no…'

Please note that all contributions to ''Subti''Wiki may be edited, altered, or removed by other contributors.
If you do not want your writing to be edited mercilessly, then do not submit it here. 
You are also promising us that you wrote this yourself, or copied it from a public domain or similar free resource (see $1 for details).
'''Do not submit copyrighted work without permission!'''

== How do I format my text? ==

The toolbar above the text-entry box will aid you in adding wiki markup. To use it, just select the text you want to format and click on the button. The change in your text serves to markup your intended format, so that it is available after you press the '''Save Page''' button. If you need further help, please visit [[Help:Editing|this page ]].

'''Important''': References to scientific articles increase the credibility of your contributions! To add a link to a PubMed article you first need to get its PubMed Identifier (PMID). It can usually be found below the journal name or the abstract. Then, depending on the context, do the following:

* If you are editing the '''References''' section, just add the PMID to the <nowiki><pubmed> <\pubmed></nowiki> space. After saving the page, ''Subti''Wiki will extract the full citation of the paper automatically.
* If you are editing another part of the page and want to link your contribution to a paper in PubMed, write <nowiki>{{PubMed|xxxxxx}}</nowiki> where xxxxxx is the PMID you extracted ( e.g. '''<nowiki>{{PubMed|19383706}}</nowiki>''' ). ''Subti''Wiki will automatically convert this text into a link to the corresponding PubMed reference. To add more than one reference, separate the PMIDs using commas and no spaces, as in '''<nowiki>{{PubMed|19383706,16407324}}</nowiki>'''