YesW - Revision history

Jstuelk: /* References */

2015-08-10T07:44:17Z

‎References

Jstuelk at 16:04, 7 June 2014

2014-06-07T16:04:15Z

134.76.38.147 at 13:10, 2 April 2014

2014-04-02T13:10:00Z

134.76.70.252 at 12:44, 16 May 2013

2013-05-16T12:44:26Z

134.76.70.252 at 09:40, 14 May 2013

2013-05-14T09:40:04Z

134.76.70.252 at 12:19, 13 May 2013

2013-05-13T12:19:36Z

Raphael2215 at 09:06, 13 August 2012

2012-08-13T09:06:45Z

134.76.70.252 at 15:48, 6 August 2012

2012-08-06T15:48:06Z

134.76.70.252 at 15:41, 18 April 2012

2012-04-18T15:41:33Z

134.76.70.252 at 15:48, 12 April 2012

2012-04-12T15:48:48Z

← Older revision		Revision as of 07:44, 10 August 2015
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−	* '''Description:''' rhamnogalacturonan lyase, generates oligosaccharides <br/><br/>	+	{{#bank: YesW}}
−	{~~\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''yesW''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:~~#~~ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background~~:~~#ABCDEF;" align="center"\| '''Product''' \|\| rhamnogalacturonan lyase, generates oligosaccharides~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| utilization of rhamnogalacturonan~~
−	\|-
−	\|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=BSU07050 yesW]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 67 kDa, 5.966~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1860 bp, 620 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[yesV]]'', ''[[yesX]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07050 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07050 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07050 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:yesW_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=yesW_770234_772096_1 Expression at a glance]'''   {{PubMed\|22383849}~~}~~<br/>[[Image:yesW_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07050]]~~
−	\|-
−	\|}

−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[utilization of specific carbon sources]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[RhgR regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU07050
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU07050&redirect=T BSU07050]
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12857]
−
−	~~=== Additional information===~~
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−
−	* '''Protein family:''' FG-GAP repeat (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):''' [[YesX]]
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−	** secreted (according to Swiss-Prot)
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU07050&redirect=T BSU07050]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=2Z8R 2Z8R]
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/O31526 O31526]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU07050]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[rhgR]]-[[yesT]]-[[yesU]]-[[yesV]]-[[yesW]]-[[yesX]]-[[yesY]]-[[yesZ]]'' {{PubMed\|19651770}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yesW_770234_772096_1 yesW] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:'''
−
−	* '''Regulation:''' induced by pectin ([[RhgR]]) {{PubMed\|19651770}}
−
−	* '''Regulatory mechanism:''' [[RhgR]]: transcriptional activation {{PubMed\|19651770}}
−
−	* '''Additional information:'''
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~<pubmed> 19651770 17449691,17947240 , 19193638 16682770 </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 34: / Line 34: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
 <br/><br/>
@@ Line 44: / Line 40: @@
 = This gene is a member of the following [[regulons]] =
-{{SubtiWiki regulon|[[YesS regulon]]}}
+{{SubtiWiki regulon|[[RhgR regulon]]}}
 =The gene=
@@ Line 62: / Line 58: @@
 === Additional information===
 =The protein=
@@ Line 108: / Line 101: @@
 =Expression and regulation=
-* '''Operon:''' ''[[yesS]]-[[yesT]]-[[yesU]]-[[yesV]]-[[yesW]]-[[yesX]]-[[yesY]]-[[yesZ]]'' {{PubMed|19651770}}
+* '''Operon:''' ''[[rhgR]]-[[yesT]]-[[yesU]]-[[yesV]]-[[yesW]]-[[yesX]]-[[yesY]]-[[yesZ]]'' {{PubMed|19651770}}
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yesW_770234_772096_1 yesW] {{PubMed|22383849}}
-* '''Sigma factor:'''
+* '''[[Sigma factor]]:'''
-* '''Regulation:''' induced by pectin ([[YesS]]) {{PubMed|19651770}}
+* '''Regulation:''' induced by pectin ([[RhgR]]) {{PubMed|19651770}}
-* '''Regulatory mechanism:''' [[YesS]]: transcriptional activation {{PubMed|19651770}}
+* '''Regulatory mechanism:''' [[RhgR]]: transcriptional activation {{PubMed|19651770}}
 * '''Additional information:'''

@@ Line 55: / Line 55: @@
 === Database entries ===
 * '''DBTBS entry:''' no entry
@@ Line 93: / Line 94: @@
 === Database entries ===
 * '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=2Z8R 2Z8R]

@@ Line 26: / Line 26: @@
   <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=yesW_770234_772096_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yesW_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yesW_770234_772096_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yesW_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07050]]
 |-
 |}

@@ Line 21: / Line 21: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yesV]]'', ''[[yesX]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07050 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07050 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07050 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07050 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07050 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07050 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:yesW_context.gif]]

@@ Line 13: / Line 13: @@
 |style="background:#ABCDEF;" align="center"|'''Function''' || utilization of rhamnogalacturonan
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU07050 yesW]
+|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=BSU07050 yesW]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 67 kDa, 5.966
@@ Line 21: / Line 21: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yesV]]'', ''[[yesX]]''
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB12524&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07050 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07050 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07050 Advanced_DNA]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:yesW_context.gif]]

@@ Line 1: / Line 1: @@
+* '''Description:''' rhamnogalacturonan lyase, generates oligosaccharides <br/><br/>
 {| align="right" border="1" cellpadding="2"
 |-