SmpB - Revision history

134.76.38.147 at 14:45, 2 April 2014

2014-04-02T14:45:54Z

134.76.70.252 at 14:34, 16 May 2013

2013-05-16T14:34:49Z

134.76.70.252 at 11:16, 14 May 2013

2013-05-14T11:16:29Z

134.76.70.252 at 13:51, 13 May 2013

2013-05-13T13:51:12Z

134.76.70.252 at 15:57, 7 August 2012

2012-08-07T15:57:07Z

134.76.70.252 at 09:12, 23 April 2012

2012-04-23T09:12:23Z

134.76.70.252 at 06:34, 17 April 2012

2012-04-17T06:34:56Z

Jstuelk: /* Extended information on the protein */

2011-12-19T20:55:33Z

‎Extended information on the protein

Jstuelk at 07:36, 3 February 2011

2011-02-03T07:36:15Z

Lflorez at 23:22, 8 December 2010

2010-12-08T23:22:54Z

← Older revision		Revision as of 14:45, 2 April 2014
Line 1:		Line 1:
−	* '''Description:~~''' tmRNA-binding protein <br/><br/>~~	+	{{#bank: SmpB}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''smpB''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''yvaI ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| tmRNA-binding protein~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| trans-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=BSU33600 smpB]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 17 kDa, 10.421~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 468 bp, 156 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[ssrA]]'', ''[[rnr]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU33600 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU33600 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU33600 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:smpB_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=smpB_3451248_3451718_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:smpB_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU33600]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−
−
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[translation]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU33600
−
−	~~===Phenotypes of a mutant ===~~
−	* impaired growth at high and low temperatures {{PubMed\|15805528}}
−	~~=== Database entries ===~~
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG14064]
−
−	~~=== Additional information===~~
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−
−	* '''Protein family:''' smpB 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]]:'''
−	** [[SmpB]]-[[SsrA]]
−
−	* '''[[Localization]]:''' cytoplasm (according to Swiss-Prot)
−
−	~~=== Database entries ===~~
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/O32230 O32230]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU33600]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:'''
−	** ''[[secG]]-[[yvaK]]-[[rnr]]-[[smpB]]-[[ssrA]]'' {{PubMed\|17369301}}
−	** ''[[yvaK]]-[[rnr]]-[[smpB]]-[[ssrA]]'' {{PubMed\|17369301}}
−	** ''[[smpB]]-[[ssrA]]'' {{PubMed\|17369301}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=smpB_3451248_3451718_-1 smpB] {{PubMed\|22383849}}
−
−	* '''Sigma factor:'''
−
−	* '''Regulation:'''
−	** ''[[yvaK]]'': [[SigB]] [http://www.ncbi.nlm.nih.gov/pubmed/11544224 PubMed]
−
−	* '''Regulation:'''
−	** ''[[yvaK]]'': induced by stress ([[SigB]]) [http://www.ncbi.nlm.nih.gov/pubmed/11544224 PubMed]
−
−	* '''Additional information:'''
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	* [[Chet Price]], Davis, USA [http://foodscience.ucdavis.edu/price_lab/pricelab.html homepage]
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−
−	~~<pubmed>18977770,11395451,17369301,12730326,,10881189, 15805528 </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 27: / Line 27: @@
   <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=smpB_3451248_3451718_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:smpB_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=smpB_3451248_3451718_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:smpB_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU33600]]
 |-
 |}

@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ssrA]]'', ''[[rnr]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU33600 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU33600 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU33600 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU33600 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU33600 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU33600 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:smpB_context.gif]]

@@ Line 14: / Line 14: @@
 |style="background:#ABCDEF;" align="center"|'''Function''' || trans-translation
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU33600 smpB]
+|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=BSU33600 smpB]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 17 kDa, 10.421
@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ssrA]]'', ''[[rnr]]''
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15365&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU33600 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU33600 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU33600 Advanced_DNA]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:smpB_context.gif]]

@@ Line 13: / Line 13: @@
 |-
 |style="background:#ABCDEF;" align="center"|'''Function''' || trans-translation
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 17 kDa, 10.421

@@ Line 100: / Line 100: @@
 ** ''[[smpB]]-[[ssrA]]'' {{PubMed|17369301}}
-* '''[[Sigma factor]]:'''
+* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=smpB_3451248_3451718_-1 smpB] {{PubMed|22383849}}
 * '''Regulation:'''
@@ Line 108: / Line 110: @@
 ** ''[[yvaK]]'': induced by stress ([[SigB]]) [http://www.ncbi.nlm.nih.gov/pubmed/11544224 PubMed]
 * '''Additional information:'''
 =Biological materials =

@@ Line 76: / Line 76: @@
 * '''Effectors of protein activity:'''
-* '''Interactions:''' [[SmpB]]-[[SsrA]]
+* '''[[SubtInteract|Interactions]]:'''
-* '''Localization:''' cytoplasm (according to Swiss-Prot)
+* '''[[Localization]]:''' cytoplasm (according to Swiss-Prot)
 === Database entries ===

@@ Line 44: / Line 44: @@
 ===Phenotypes of a mutant ===
+* impaired growth at high and low temperatures {{PubMed|15805528}}
 === Database entries ===
@@ Line 52: / Line 52: @@
 === Additional information===
@@ Line 78: / Line 76: @@
 * '''Effectors of protein activity:'''
-* '''Interactions:'''
+* '''Interactions:''' [[SmpB]]-[[SsrA]]
 * '''Localization:''' cytoplasm (according to Swiss-Prot)
@@ Line 97: / Line 95: @@
 * '''Operon:'''
 * '''[[Sigma factor]]:'''
 * '''Regulation:'''
-* '''Regulatory mechanism:'''
+* '''Regulation:'''
 * '''Additional information:'''
@@ Line 128: / Line 131: @@
 =References=
-<pubmed>18977770,11395451,17369301,12730326,,10881189, </pubmed>
+<pubmed>18977770,11395451,17369301,12730326,,10881189, 15805528 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 30: / Line 30: @@
 <br/><br/>
 =The gene=
@@ Line 49: / Line 55: @@
-= Categories containing this gene/protein =
 =The protein=