RpoC - Revision history

Jstuelk: /* Original publications */

2015-08-30T16:48:35Z

‎Original publications

Jstuelk at 16:28, 30 August 2015

2015-08-30T16:28:41Z

Jstuelk: /* Original publications */

2015-08-06T11:27:27Z

‎Original publications

Jstuelk at 14:54, 26 April 2015

2015-04-26T14:54:05Z

Jstuelk at 09:55, 28 January 2015

2015-01-28T09:55:41Z

Jstuelk: /* Expression and regulation */

2015-01-28T09:54:47Z

‎Expression and regulation

Fabian Commichau: /* Biological materials */

2014-10-07T13:48:59Z

‎Biological materials

Jstuelk: /* Extended information on the protein */

2014-08-06T11:54:59Z

‎Extended information on the protein

Jstuelk at 11:23, 6 August 2014

2014-08-06T11:23:27Z

Jstuelk: /* Reviews */

2014-04-25T16:43:33Z

‎Reviews

← Older revision		Revision as of 16:48, 30 August 2015
Line 1:		Line 1:
−	* '''Description:~~''' [[RNA polymerase]] beta' subunit <br/><br/>~~	+	{{#bank: RpoC}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''rpoC''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| [[RNA polymerase]] beta' subunit~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| [[transcription]]~~
−	\|-
−	\|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=BSU01080 rpoC]
−	\|-
−	\|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=RpoC RpoC]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 133 kDa, 8.863~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 3597 bp, 1199 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[rpoB]]'', ''[[ybxF]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU01080 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU01080 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU01080 DNA_with_flanks]
−	\|-
−	\|-
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:rpoC_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=rpoC_125562_129161_1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:rpoC_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU01080]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[transcription]]}},~~
−	~~{{SubtiWiki category\|[[essential genes]]}},~~
−	~~{{SubtiWiki category\|[[membrane proteins]]}},~~
−	~~{{SubtiWiki category\|[[phosphoproteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[stringent response]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU01080
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU01080&redirect=T BSU01080]
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10729]
−
−	~~=== Additional information===~~
−	* mutations in ''[[mtrB]]'', ''[[sigB]]'', ''[[rpoB]]'', and ''[[rpoC]]'' allow ''B. subtilis'' to grow with 4-fluorotryptophan rather than with tryptophan as a canonical amino acid of the genetic code {{PubMed\|24572018}}
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1) (according to Swiss-Prot)
−
−	* '''Protein family:''' [[RNA polymerase]] beta' chain family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''[[Domains]]:'''
−
−	* '''Modification:'''
−	** phosphorylated on Arg-335 and Arg-803 {{PubMed\|22517742}}
−
−	* '''[[Cofactors]]:'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** [[RpoA]]-[[RpoB]]-[[RpoC]] {{PubMed\|10499798}}
−	** [[RpoC]]-[[RpoY]] {{PubMed\|25092033}}
−	** [[SigA]]-([[RpoB]]-[[RpoC]]) {{PubMed\|19680289,19735077}}, [[SigB]]-([[RpoB]]-[[RpoC]])
−	** [[SigD]]-([[RpoB]]-[[RpoC]]), [[SigE]]-([[RpoB]]-[[RpoC]])
−	** [[SigF]]-([[RpoB]]-[[RpoC]]), [[SigG]]-([[RpoB]]-[[RpoC]])
−	** [[SigH]]-([[RpoB]]-[[RpoC]]), [[SigI]]-([[RpoB]]-[[RpoC]])
−	** [[SigK]]-([[RpoB]]-[[RpoC]])
−	** [[SigL]]-([[RpoB]]-[[RpoC]]-[[RpoA]]) {{PubMed\|26293966}}
−	** [[SigM]]-([[RpoB]]-[[RpoC]]), [[SigV]]-([[RpoB]]-[[RpoC]])
−	** [[SigW]]-([[RpoB]]-[[RpoC]]), [[SigX]]-([[RpoB]]-[[RpoC]])
−	** [[SigY]]-([[RpoB]]-[[RpoC]]), [[SigZ]]-([[RpoB]]-[[RpoC]])
−	** [[Xpf]]-([[RpoB]]-[[RpoC]]), [[YlaC]]-([[RpoB]]-[[RpoC]])
−	** [[YvrHa]]-[[RpoC]] {{PubMed\|19940246}}
−	** [[RpoC]]-[[RpoE]] (demonstrated for ''S. aureus'') {{PubMed\|24491578}}
−
−	* '''[[Localization]]:'''
−	** colocalizes with the nucleoid {{PubMed\|25092033}}
−	** membrane associated [http://www.ncbi.nlm.nih.gov/pubmed/18763711 PubMed]
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU01080&redirect=T BSU01080]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P37871 P37871]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU01080]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.7.6 2.7.7.6]
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[rpoB]]-[[rpoC]]'' {{PubMed\|22383849}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=rpoC_125562_129161_1 rpoC] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigA]] {{PubMed\|7657605}}
−
−	* '''Regulation:'''
−	** [[RelA]] dependent downregulation (Class I) during stringent response {{PubMed\|11948165}}
−
−	* '''Regulatory mechanism:'''
−
−	* '''Additional information:'''
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 2487 {{PubMed\|24696501}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 8264 {{PubMed\|24696501}}
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Fabian Commichau]]'s lab
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~==Reviews==~~
−	~~<pubmed> 22210308 24763425 </pubmed>~~
−	~~==Original publications==~~
−	~~<pubmed>7657605,12486038,10675340,7592585, 19735077,18763711, 19680289 22517742 23070162,20817769 24572018 25092033 24491578 26243774 26293966</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 100: / Line 100: @@
 ** [[SigF]]-([[RpoB]]-[[RpoC]]), [[SigG]]-([[RpoB]]-[[RpoC]])
 ** [[SigH]]-([[RpoB]]-[[RpoC]]), [[SigI]]-([[RpoB]]-[[RpoC]])
-** [[SigK]]-([[RpoB]]-[[RpoC]]), [[SigL]]-([[RpoB]]-[[RpoC]])
+** [[SigK]]-([[RpoB]]-[[RpoC]])
 ** [[SigM]]-([[RpoB]]-[[RpoC]]), [[SigV]]-([[RpoB]]-[[RpoC]])
 ** [[SigW]]-([[RpoB]]-[[RpoC]]), [[SigX]]-([[RpoB]]-[[RpoC]])
@@ Line 164: / Line 165: @@
 <pubmed> 22210308 24763425 </pubmed>
 ==Original publications==
-<pubmed>7657605,12486038,10675340,7592585, 19735077,18763711, 19680289 22517742 23070162,20817769 24572018 25092033 24491578 26243774</pubmed>
+<pubmed>7657605,12486038,10675340,7592585, 19735077,18763711, 19680289 22517742 23070162,20817769 24572018 25092033 24491578 26243774 26293966</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 164: / Line 164: @@
 <pubmed> 22210308 24763425 </pubmed>
 ==Original publications==
-<pubmed>7657605,12486038,10675340,7592585, 19735077,18763711, 19680289 22517742 23070162,20817769 24572018 25092033 24491578</pubmed>
+<pubmed>7657605,12486038,10675340,7592585, 19735077,18763711, 19680289 22517742 23070162,20817769 24572018 25092033 24491578 26243774</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 106: / Line 106: @@
 ** [[Xpf]]-([[RpoB]]-[[RpoC]]), [[YlaC]]-([[RpoB]]-[[RpoC]])
 ** [[YvrHa]]-[[RpoC]] {{PubMed|19940246}}
 * '''[[Localization]]:'''
@@ Line 163: / Line 164: @@
 <pubmed> 22210308 24763425 </pubmed>
 ==Original publications==
-<pubmed>7657605,12486038,10675340,7592585, 19735077,18763711, 19680289 22517742 23070162,20817769 24572018 25092033</pubmed>
+<pubmed>7657605,12486038,10675340,7592585, 19735077,18763711, 19680289 22517742 23070162,20817769 24572018 25092033 24491578</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 130: / Line 130: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=rpoC_125562_129161_1 rpoC] {{PubMed|22383849}}
-* '''[[Sigma factor]]:'''
+* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|7657605}}
 * '''Regulation:'''

@@ Line 126: / Line 126: @@
 =Expression and regulation=
-* '''Operon:'''
+* '''Operon:''' ''[[rpoB]]-[[rpoC]]'' {{PubMed|22383849}}
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=rpoC_125562_129161_1 rpoC] {{PubMed|22383849}}

@@ Line 151: / Line 151: @@
 * '''GFP fusion:'''
-* '''two-hybrid system:'''
+* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Fabian Commichau]]'s lab
 * '''Antibody:'''

@@ Line 95: / Line 95: @@
 * '''[[SubtInteract|Interactions]]:'''
 ** [[RpoA]]-[[RpoB]]-[[RpoC]] {{PubMed|10499798}}
 ** [[SigA]]-([[RpoB]]-[[RpoC]]) {{PubMed|19680289,19735077}}, [[SigB]]-([[RpoB]]-[[RpoC]])
 ** [[SigD]]-([[RpoB]]-[[RpoC]]), [[SigE]]-([[RpoB]]-[[RpoC]])

@@ Line 158: / Line 158: @@
 =References=
 ==Reviews==
-<pubmed> 22210308 </pubmed>
+<pubmed> 22210308 24763425 </pubmed>
 ==Original publications==
 <pubmed>7657605,12486038,10675340,7592585, 19735077,18763711, 19680289 22517742 23070162,20817769 24572018</pubmed>
 [[Category:Protein-coding genes]]