CmoJ - Revision history

Jstuelk at 11:24, 18 August 2013

2013-08-18T11:24:16Z

Jstuelk: Jstuelk moved page YtnJ to CmoJ: 23944997

2013-08-18T09:44:31Z

Jstuelk moved page YtnJ to CmoJ: 23944997

134.76.70.252 at 14:17, 16 May 2013

2013-05-16T14:17:27Z

134.76.70.252 at 11:00, 14 May 2013

2013-05-14T11:00:00Z

134.76.70.252 at 13:35, 13 May 2013

2013-05-13T13:35:31Z

134.76.70.252 at 14:53, 7 August 2012

2012-08-07T14:53:17Z

134.76.70.252 at 10:57, 20 April 2012

2012-04-20T10:57:42Z

134.76.70.252 at 15:12, 16 April 2012

2012-04-16T15:12:13Z

Lflorez at 22:23, 8 December 2010

2010-12-08T22:23:53Z

Jstuelk: /* References */

2010-12-06T21:49:16Z

‎References

← Older revision		Revision as of 11:24, 18 August 2013
Line 1:		Line 1:
−	* '''Description:~~''' similar to nitrilotriacetate monooxygenase <br/><br/>~~	+	{{#bank: CmoJ}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''ytnJ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| unknown~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| unknown~~
−	\|-
−	\|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=BSU29310 ytnJ]
−	\|-
−	\|colspan="2" style="background:#FAF8CC;" align="center"\| '''Metabolic function and regulation of this protein in [[SubtiPathways\|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/riboflavin.html Riboflavin / FAD]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 49 kDa, 5.715~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1326 bp, 442 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[ribR]]'', ''[[ytnI]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU29310 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU29310 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU29310 DNA_with_flanks]
−	\|-
−	\|-
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:ytnJ_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=ytnJ_3001724_3003052_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:ytnJ_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU29310]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<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\|[[poorly characterized/ putative enzymes]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[CymR regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[YtlI regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU29310
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ytmIJKLMNO-ytnIJ-ribR-ytnLM.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13893]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−
−	* '''Protein family:''' ntaA/snaA/soxA(dszA) monooxygenase family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):''' [[YxeK]]
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''Interactions:'''
−
−	* '''Localization:'''
−
−	~~=== Database entries ===~~
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1YW1 1YW1] (complex with FMN), [http://www.rcsb.org/pdb/explore.do?structureId=1TVL 1TVL]
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/O34974 O34974]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU29310]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−	* '''Operon:''' ''[[ytmI]]-[[tcyJ]]-[[tcyK]]-[[tcyL]]-[[tcyM]]-[[tcyN]]-[[ytmO]]-[[ytnI]]-[[ytnJ]]-[[ribR]]-[[ytnL]]-[[ytnM]]'' {{PubMed\|15668000}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ytnJ_3001724_3003052_-1 ytnJ] {{PubMed\|22383849}}
−
−	* '''Sigma factor:''' [[SigA]] {{PubMed\|15272571}}
−
−	* '''Regulation:'''
−	** repressed in the presence of cysteine ([[CymR]]) {{PubMed\|16109943}}
−
−	* '''Regulatory mechanism:'''
−	** [[CymR]]: transcription repression {{PubMed\|16109943}}
−	** [[YtlI]]: transcription activation {{PubMed\|16109943}}
−
−	* '''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=~~
−	~~'''Additional publications:''' {{PubMed\|15272571}}~~
−	~~<pubmed>16109943,15668000, </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 31: / Line 31: @@
   <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=ytnJ_3001724_3003052_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ytnJ_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ytnJ_3001724_3003052_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ytnJ_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU29310]]
 |-
 |}

@@ Line 24: / Line 24: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ribR]]'', ''[[ytnI]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU29310 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU29310 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU29310 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU29310 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU29310 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU29310 DNA_with_flanks]
 |-
 |-

@@ Line 14: / Line 14: @@
 |style="background:#ABCDEF;" align="center"|'''Function''' || unknown
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU29310 ytnJ]
+|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=BSU29310 ytnJ]
 |-
 |colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/riboflavin.html Riboflavin / FAD]'''
@@ Line 24: / Line 24: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ribR]]'', ''[[ytnI]]''
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB14891&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU29310 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU29310 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU29310 Advanced_DNA]
 |-
 |-

@@ Line 13: / Line 13: @@
 |-
 |style="background:#ABCDEF;" align="center"|'''Function''' || unknown
 |-
 |colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/riboflavin.html Riboflavin / FAD]'''

← Older revision	Revision as of 09:44, 18 August 2013
(No difference)

@@ Line 28: / Line 28: @@
 |colspan="2" | '''Genetic context''' <br/> [[Image:ytnJ_context.gif]]
   <div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 |-
 |}
 __TOC__
 <br/><br/><br/><br/><br/><br/>

@@ Line 102: / Line 102: @@
 * '''Operon:''' ''[[ytmI]]-[[tcyJ]]-[[tcyK]]-[[tcyL]]-[[tcyM]]-[[tcyN]]-[[ytmO]]-[[ytnI]]-[[ytnJ]]-[[ribR]]-[[ytnL]]-[[ytnM]]'' {{PubMed|15668000}}
-* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|15272571}}
+* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ytnJ_3001724_3003052_-1 ytnJ] {{PubMed|22383849}}
 * '''Regulation:'''

@@ Line 34: / Line 34: @@
 <br/><br/><br/><br/><br/><br/>
 =The gene=
@@ Line 53: / Line 60: @@
-= Categories containing this gene/protein =
 =The protein=

@@ Line 126: / Line 126: @@
 =References=
+'''Additional publications:''' {{PubMed|15272571}}
-<pubmed>16109943,15668000, 15272571</pubmed>
+<pubmed>16109943,15668000, </pubmed>
 [[Category:Protein-coding genes]]