RemA - Revision history

Jstuelk: /* Original publications */

2014-10-10T16:02:04Z

‎Original publications

Jstuelk: /* References */

2014-07-07T08:16:17Z

‎References

134.76.70.252 at 10:02, 17 April 2014

2014-04-17T10:02:04Z

134.76.38.147 at 13:41, 2 April 2014

2014-04-02T13:41:12Z

134.76.70.252 at 10:45, 7 January 2014

2014-01-07T10:45:07Z

Jstuelk at 15:58, 24 May 2013

2013-05-24T15:58:41Z

Jstuelk at 07:50, 24 May 2013

2013-05-24T07:50:20Z

134.76.70.252 at 13:18, 16 May 2013

2013-05-16T13:18:50Z

134.76.70.252 at 10:11, 14 May 2013

2013-05-14T10:11:24Z

134.76.70.252 at 12:47, 13 May 2013

2013-05-13T12:47:47Z

← Older revision		Revision as of 16:02, 10 October 2014
Line 1:		Line 1:
−	* '''Description:~~''' transcriptional regulator of the extracellular matrix genes, acts in parallel to [[SinR]], [[AbrB]], and [[DegU]] <br/><br/>~~	+	{{#bank: RemA}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''remA''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''ylzA ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| regulator of the extracellular matrix genes~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| control of [[biofilm formation]]~~
−	\|-
−	\|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=BSU15670 remA]
−	\|-
−	\|colspan="2" style="background:#FAF8CC;" align="center"\| '''Metabolic function and regulation of this protein in [[SubtiPathways\|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=remA remA]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 9 kDa, 7.178~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 267 bp, 89 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[yloC]]'', ''[[gmk]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU15670 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU15670 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU15670 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:ylzA_context.gif]]~~
−	~~<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>~~
−	\|-
−	\|colspan="2" \|'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ylzA_1641672_1641941_1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:remA_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU15670]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[transcription factors and their control]]}},~~
−	~~{{SubtiWiki category\|[[biofilm formation]]}},~~
−	~~{{SubtiWiki category\|[[sporulation proteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[SigF regulon]]}}~~
−
−	~~=The [[RemA regulon]]=~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU15670
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU15670&redirect=T BSU15670]
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG14185]
−
−	~~=== Additional information===~~
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−	** binds opuAA, tapA, and epsA promoter regions (upstream of the actual promoter) to activate transcription {{PubMed\|23646920}}
−	** binds DNA with high co-operativity due to low conserrvation of binding sites {{PubMed\|23646920}}
−
−	* '''Protein family:''' UPF0296 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=BSU15670&redirect=T BSU15670]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/Q7WY72 Q7WY72]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU15670]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:'''
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ylzA_1641672_1641941_1 remA] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigF]] {{PubMed\|23396918}}
−
−	* '''Regulation:'''
−	** expressed during vegetative growth and early during sporulation in the forespore ([[SigF]]) {{PubMed\|23396918}}
−	* '''Regulatory mechanism:'''
−
−	* '''Additional information:'''
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 280 {{PubMed\|24696501}}
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~[[Daniel Kearns]], Indiana University, Bloomington, USA, [http://www.bio.indiana.edu/facultyresearch/faculty/Kearns.html homepage]~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~==Reviews==~~
−	~~<pubmed>24988880 </pubmed>~~
−	~~==Original publications==~~
−	~~<pubmed>,19363116, 22329926 23123912 23396918 23646920 </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 144: / Line 144: @@
 =References=
 <pubmed>,19363116, 22329926 23123912 23396918 23646920 </pubmed>
 [[Category:Protein-coding genes]]

← Older revision		Revision as of 10:02, 17 April 2014
Line 121:		Line 121:

	* '''Additional information:'''		* '''Additional information:'''
		+	** number of protein molecules per cell (minimal medium with glucose and ammonium): 280 {{PubMed\|24696501}}

	=Biological materials =		=Biological materials =

@@ Line 58: / Line 58: @@
 === Database entries ===
 * '''DBTBS entry:''' no entry
@@ Line 95: / Line 96: @@
 === Database entries ===
 * '''Structure:'''

@@ Line 16: / Line 16: @@
 |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=BSU15670 remA]
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/gene_regulation_nucleotides.html Nucleotides (regulation)]'''
+|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=remA remA]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 9 kDa, 7.178

← Older revision		Revision as of 15:58, 24 May 2013
Line 71:		Line 71:

	* '''Catalyzed reaction/ biological activity:'''		* '''Catalyzed reaction/ biological activity:'''
		+	** binds opuAA, tapA, and epsA promoter regions (upstream of the actual promoter) to activate transcription {{PubMed\|23646920}}
		+	** binds DNA with high co-operativity due to low conserrvation of binding sites {{PubMed\|23646920}}

	* '''Protein family:''' UPF0296 family (according to Swiss-Prot)		* '''Protein family:''' UPF0296 family (according to Swiss-Prot)

@@ Line 1: / Line 1: @@
-* '''Description:''' involved in the activation of biofilm matrix biosynthetic operons, acts in parallel to [[SinR]], [[AbrB]], and [[DegU]] <br/><br/>
+* '''Description:''' transcriptional regulator of the extracellular matrix genes, acts in parallel to [[SinR]], [[AbrB]], and [[DegU]] <br/><br/>
 {| align="right" border="1" cellpadding="2"
@@ Line 10: / Line 10: @@
 |style="background:#ABCDEF;" align="center"| '''Essential''' || no
 |-
-|style="background:#ABCDEF;" align="center"| '''Product''' || regulator of the extracellular matrix
+|style="background:#ABCDEF;" align="center"| '''Product''' || regulator of the extracellular matrix genes
 |-
 |style="background:#ABCDEF;" align="center"|'''Function''' || control of [[biofilm formation]]
@@ Line 40: / Line 40: @@
 = [[Categories]] containing this gene/protein =
 {{SubtiWiki category|[[biofilm formation]]}},
 {{SubtiWiki category|[[sporulation proteins]]}}
@@ Line 45: / Line 46: @@
 = This gene is a member of the following [[regulons]] =
 {{SubtiWiki regulon|[[SigF regulon]]}}
 =The gene=
@@ Line 136: / Line 139: @@
 =References=
-'''Additional publications:''' {{PubMed|22329926}}
+<pubmed>,19363116, 22329926 23123912 23396918 23646920 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 29: / Line 29: @@
   <div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 |-
-|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ylzA_1641672_1641941_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:remA_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ylzA_1641672_1641941_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:remA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU15670]]
 |-
 |}

@@ Line 24: / Line 24: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yloC]]'', ''[[gmk]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU15670 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU15670 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU15670 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU15670 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU15670 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU15670 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:ylzA_context.gif]]