RpsD - Revision history

Jstuelk at 15:52, 3 July 2015

2015-07-03T15:52:01Z

Jstuelk at 15:12, 3 July 2015

2015-07-03T15:12:27Z

Jstuelk: /* References */

2015-02-23T16:22:25Z

‎References

134.76.70.252 at 09:51, 17 April 2014

2014-04-17T09:51:59Z

134.76.38.147 at 14:31, 2 April 2014

2014-04-02T14:31:32Z

134.76.70.252 at 09:08, 12 November 2013

2013-11-12T09:08:24Z

Jstuelk at 10:28, 10 August 2013

2013-08-10T10:28:40Z

134.76.70.252 at 14:19, 16 May 2013

2013-05-16T14:19:05Z

134.76.70.252 at 11:01, 14 May 2013

2013-05-14T11:01:25Z

134.76.70.252 at 13:36, 13 May 2013

2013-05-13T13:36:54Z

← Older revision		Revision as of 15:52, 3 July 2015
Line 1:		Line 1:
−	* '''Description:~~''' [[ribosomal protein]] <br/><br/>~~	+	{{#bank: RpsD}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''rpsD''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| yes {{PubMed\|23002217,12682299}}~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| [[ribosomal protein]] S4 (BS4)~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| [[translation]]~~
−	\|-
−	\|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=BSU29660 rpsD]
−	\|-
−	\|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=RpsD RpsD]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 22 kDa, 10.243~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 600 bp, 200 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[dgcP]]'', ''[[S1136-1134]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU29660 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU29660 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU29660 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:rpsD_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=rpsD_3035730_3036332_1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:rpsD_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU29660]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[translation]]}},~~
−	~~{{SubtiWiki category\|[[essential genes]]}},~~
−	~~{{SubtiWiki category\|[[universally conserved proteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[stringent response]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU29660
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~essential {{PubMed\|23002217,12682299}}~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU29660&redirect=T BSU29660]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/rpsD.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10372]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−
−	* '''Protein family:''' [[ribosomal protein]] S4P 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=BSU29660&redirect=T BSU29660]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1C06 1C06] (Geobacillus stearothermophilus)
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P21466 P21466]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU29660]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[rpsD]]'' {{PubMed\|1699930}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=rpsD_3035730_3036332_1 rpsD] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigA]] {{PubMed\|1699930}}
−
−	* '''Regulation:'''
−	** [[RelA]] dependent downregulation (Class I) during stringent response {{PubMed\|11948165}}
−	** autorepression of ''rpsD'' expression upon binding of excess [[RpsD]] to a [[RNA switch]] in the untranslated region of the ''rpsD'' mRNA {{PubMed\|23611891,1906866}}
−
−	* '''Regulatory mechanism:'''
−
−	* '''Additional information:'''
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 8008 {{PubMed\|24696501}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 42285 {{PubMed\|24696501}}
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~<pubmed>1699930,2121712,6420647,1400226,1906866,, 19653700 11489846 23611891 23002217 25548247 25548248</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 600 bp, 200 aa
 |-
-|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[dgcP]]'', ''[[tyrS]]''
+|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[dgcP]]'', ''[[S1136-1134]]''
 |-
 |style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU29660 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU29660 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU29660 DNA_with_flanks]

@@ Line 145: / Line 145: @@
 =References=
-<pubmed>1699930,2121712,6420647,1400226,1906866,, 19653700 11489846 23611891 23002217</pubmed>
+<pubmed>1699930,2121712,6420647,1400226,1906866,, 19653700 11489846 23611891 23002217 25548247 25548248</pubmed>
 [[Category:Protein-coding genes]]

← Older revision		Revision as of 09:51, 17 April 2014
Line 123:		Line 123:

	* '''Additional information:'''		* '''Additional information:'''
		+	** number of protein molecules per cell (minimal medium with glucose and ammonium): 8008 {{PubMed\|24696501}}
		+	** number of protein molecules per cell (complex medium with amino acids, without glucose): 42285 {{PubMed\|24696501}}

	=Biological materials =		=Biological materials =

@@ Line 58: / Line 58: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/rpsD.html]
@@ Line 95: / Line 96: @@
 === Database entries ===
 * '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1C06 1C06] (Geobacillus stearothermophilus)

@@ 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=BSU29660 rpsD]
 |-
-|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/RpsD RpsD]
+|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=RpsD RpsD]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 22 kDa, 10.243

@@ 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=rpsD_3035730_3036332_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:rpsD_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=rpsD_3035730_3036332_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:rpsD_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU29660]]
 |-
 |}

@@ Line 24: / Line 24: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ytrP]]'', ''[[tyrS]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU29660 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU29660 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU29660 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU29660 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU29660 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU29660 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:rpsD_context.gif]]