RpsO - Revision history

134.76.70.252 at 09:52, 17 April 2014

2014-04-17T09:52:45Z

134.76.38.147 at 13:45, 2 April 2014

2014-04-02T13:45:47Z

134.76.70.252 at 16:19, 11 November 2013

2013-11-11T16:19:27Z

Jstuelk at 10:41, 19 June 2013

2013-06-19T10:41:33Z

134.76.70.252 at 13:24, 16 May 2013

2013-05-16T13:24:13Z

134.76.70.252 at 10:16, 14 May 2013

2013-05-14T10:16:17Z

134.76.70.252 at 12:52, 13 May 2013

2013-05-13T12:52:16Z

Jstuelk: /* Expression and regulation */

2013-04-26T11:14:57Z

‎Expression and regulation

Jstuelk: /* Expression and regulation */

2013-04-26T10:56:10Z

‎Expression and regulation

Jstuelk: /* Expression and regulation */

2013-04-26T10:55:55Z

‎Expression and regulation

← Older revision		Revision as of 09:52, 17 April 2014
Line 1:		Line 1:
−	* '''Description:~~''' [[ribosomal protein]] <br/><br/>~~	+	{{#bank: RpsO}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''rpsO''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| yes {{PubMed\|23002217,12682299}}~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| [[ribosomal protein]] S15 (BS18)~~
−	\|-
−	~~\|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=BSU16680 rpsO]
−	\|-
−	\|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=RpsO RpsO]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 10 kDa, 10.975~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 267 bp, 89 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[ribC]]'', ''[[pnpA]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU16680 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU16680 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU16680 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:rpsO_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=rpsO_1738941_1739210_1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:rpsO_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU16680]]
−	\|-
−	\|}
−
−	~~__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]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[stringent response]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU16680
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~essential {{PubMed\|23002217,12682299}}~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU16680&redirect=T BSU16680]
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG19010]
−
−	~~=== Additional information===~~
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−
−	* '''Protein family:''' [[ribosomal protein]] S15P 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]]:'''
−	** [[23S rRNA]]-[[rpsO\|S15]] {{PubMed\|10497132}}
−	** [[16S rRNA]]-[[rpsO\|S15]] {{PubMed\|11846555}}
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU16680&redirect=T BSU16680]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1A32 1A32] (''Geobacillus stearothermophilus'')
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P21473 P21473]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU16680]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''rpsO'' {{PubMed\|19633085}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=rpsO_1738941_1739210_1 rpsO] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:'''
−
−	* '''Regulation:'''
−	** [[RelA]] dependent downregulation (Class I) during stringent response {{PubMed\|11948165}}
−	** translational repression of ''rpsO'' expression upon binding of excess [[RpsO]] to a [[RNA switch]] in the untranslated region of the ''rpsO'' mRNA {{PubMed\|23611891,16005889}}
−
−	* '''Regulatory mechanism:'''
−
−	* '''Additional information:'''
−	** the mRNA is processed, this is initiated by [[rny\|RNase Y]] and cleavage products are subsequently subject to exonucleolytic degradation by RNases [[rnjA\|J1]] and [[rnjB\|J2]] and by [[pnpA\|PNPase]] {{PubMed\|20418391}}
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~<pubmed> 19633085 19653700 20418391 10497132 11846555 23002217 16005889 23611891 </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 57: / Line 57: @@
 === Database entries ===
 * '''DBTBS entry:''' no entry
@@ Line 94: / Line 95: @@
 === Database entries ===
 * '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1A32 1A32] (''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=BSU16680 rpsO]
 |-
-|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/RpsO RpsO]
+|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=RpsO RpsO]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 10 kDa, 10.975

@@ Line 111: / Line 111: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=rpsO_1738941_1739210_1 rpsO] {{PubMed|22383849}}
-* '''Sigma factor:'''
+* '''[[Sigma factor]]:'''
 * '''Regulation:'''

@@ 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=rpsO_1738941_1739210_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:rpsO_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=rpsO_1738941_1739210_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:rpsO_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU16680]]
 |-
 |}

@@ Line 24: / Line 24: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ribC]]'', ''[[pnpA]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU16680 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU16680 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU16680 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU16680 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU16680 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU16680 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:rpsO_context.gif]]

@@ Line 115: / Line 115: @@
 * '''Regulation:'''
 ** [[RelA]] dependent downregulation (Class I) during stringent response {{PubMed|11948165}}
-** translational repression of ''rpsO'' expression upon binding of excess [[RpsO]] to the untranslated region of the ''rpsO'' mRNA {{PubMed|23611891,16005889}}
+** translational repression of ''rpsO'' expression upon binding of excess [[RpsO]] to a [[RNA switch]] in the untranslated region of the ''rpsO'' mRNA {{PubMed|23611891,16005889}}
 * '''Regulatory mechanism:'''