NtdA - Revision history

134.76.70.252 at 10:00, 17 April 2014

2014-04-17T10:00:56Z

134.76.38.147 at 13:21, 2 April 2014

2014-04-02T13:21:47Z

Jstuelk: /* The protein */

2013-11-12T19:59:10Z

‎The protein

Jstuelk: /* Original publications */

2013-11-12T19:54:36Z

‎Original publications

134.76.70.252 at 12:55, 16 May 2013

2013-05-16T12:55:45Z

134.76.70.252 at 09:51, 14 May 2013

2013-05-14T09:51:47Z

134.76.70.252 at 12:29, 13 May 2013

2013-05-13T12:29:59Z

Jstuelk at 13:39, 19 April 2013

2013-04-19T13:39:07Z

Jstuelk at 13:37, 19 April 2013

2013-04-19T13:37:33Z

Raphael2215 at 12:35, 9 August 2012

2012-08-09T12:35:21Z

← Older revision		Revision as of 10:00, 17 April 2014
Line 1:		Line 1:
−	* '''Description:''' pyridoxal phosphate-dependent 3-oxo-glucose-6-phosphate:glutamate aminotransferase <br/><br/>	+	{{#bank: NtdA}}
−	{~~\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''ntdA''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''yhjL''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| pyridoxal phosphate-dependent~~
−	~~3-oxo-glucose-6-phosphate:glutamate aminotransferase~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| synthesis of the antibiotic kanosamine~~
−	\|-
−	~~\|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=BSU10550 ntdA]~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 49 kDa, 5.971~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1323 bp, 441 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[ntdB]]'', ''[[ntdR]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU10550 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU10550 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU10550 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:yhjL_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=ntdA_1128286_1129611_-1 Expression at a glance]'''   {{PubMed\|22383849}~~}~~<br/>[[Image:ntdA_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU10550]]~~
−	\|-
−	\|}

−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[miscellaneous metabolic pathways]]}},~~
−	~~{{SubtiWiki category\|[[biosynthesis of antibacterial compounds]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[NtdR regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU10550
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU10550&redirect=T BSU10550]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ntdABC-glcP.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13078]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−	** 3-oxo-d-glucose-6-phosphate + glutamate --> kanosamine-6-phosphate {{PubMed\|23586652}}
−
−	* '''Protein family:''' degT/dnrJ/eryC1 family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''[[Cofactors]]:'''
−	** pyridoxalphosphate {{PubMed\|23586652}}
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** forms dimers {{PubMed\|24097983}}
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU10550&redirect=T BSU10550]
−
−	* '''Structure:'''
−	** [http://www.rcsb.org/pdb/explore/explore.do?pdbId=4K2I 4K2I] {{PubMed\|24097983}}
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/O07566 O07566]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU10550]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[ntdA]]-[[ntdB]]-[[ntdC]]-[[glcP]]'' {{PubMed\|17056753}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ntdA_1128286_1129611_-1 ntdA] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigA]] {{PubMed\|14612444}}
−
−	* '''Regulation:''' induced by 3,3'-neotrehalosadiamine ([[NtdR]]) {{PubMed\|14612444}}
−
−	* '''Regulatory mechanism:''' [[NtdR]]: positive regulator {{PubMed\|14612444}}
−
−	* '''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=~~
−	~~==Reviews==~~
−	~~<pubmed> 21512256</pubmed>~~
−	~~==Original publications==~~
−	~~<pubmed>19087206,19342798,17056753 ,14612444 23586652 24097983 </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 53: / Line 53: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ntdABC-glcP.html]
@@ Line 93: / Line 94: @@
 === Database entries ===
 * '''Structure:'''

@@ Line 82: / Line 82: @@
 * '''Modification:'''
-* '''Cofactor(s):'''
+* '''[[Cofactors]]:'''
 ** pyridoxalphosphate {{PubMed|23586652}}
@@ Line 88: / Line 88: @@
 * '''[[SubtInteract|Interactions]]:'''
 * '''[[Localization]]:'''
@@ Line 93: / Line 94: @@
 === Database entries ===
 * '''Structure:'''
 * '''UniProt:''' [http://www.uniprot.org/uniprot/O07566 O07566]

@@ Line 139: / Line 139: @@
 <pubmed> 21512256</pubmed>
 ==Original publications==
-<pubmed>19087206,19342798,17056753 ,14612444  23586652 </pubmed>
+<pubmed>19087206,19342798,17056753 ,14612444  23586652 24097983 </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=ntdA_1128286_1129611_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ntdA_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ntdA_1128286_1129611_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ntdA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU10550]]
 |-
 |}

@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ntdB]]'', ''[[ntdR]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU10550 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU10550 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU10550 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU10550 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU10550 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU10550 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:yhjL_context.gif]]

@@ Line 14: / Line 14: @@
 |style="background:#ABCDEF;" align="center"|'''Function''' || synthesis of the antibiotic kanosamine
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU10550 ntdA]
+|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=BSU10550 ntdA]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 49 kDa, 5.971
@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ntdB]]'', ''[[ntdR]]''
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB12895&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU10550 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU10550 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU10550 Advanced_DNA]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:yhjL_context.gif]]

@@ Line 9: / Line 9: @@
 |style="background:#ABCDEF;" align="center"| '''Essential''' || no
 |-
-|style="background:#ABCDEF;" align="center"| '''Product''' || pyridoxal phosphate-dependent 3-oxo-glucose-6-phosphate:glutamate aminotransferase
+|style="background:#ABCDEF;" align="center"| '''Product''' || pyridoxal phosphate-dependent
 |-
 |style="background:#ABCDEF;" align="center"|'''Function''' || synthesis of the antibiotic kanosamine

@@ Line 1: / Line 1: @@
-* '''Description:''' synthesis of the antibiotic neotrehalosadiamine <br/><br/>
+* '''Description:''' pyridoxal phosphate-dependent 3-oxo-glucose-6-phosphate:glutamate aminotransferase <br/><br/>
 {| align="right" border="1" cellpadding="2"
 |-
@@ Line 9: / Line 9: @@
 |style="background:#ABCDEF;" align="center"| '''Essential''' || no
 |-
-|style="background:#ABCDEF;" align="center"| '''Product''' || sugar aminotransferase
+|style="background:#ABCDEF;" align="center"| '''Product''' || pyridoxal phosphate-dependent 3-oxo-glucose-6-phosphate:glutamate aminotransferase
 |-
-|style="background:#ABCDEF;" align="center"|'''Function''' || synthesis of the antibiotic neotrehalosadiamine
+|style="background:#ABCDEF;" align="center"|'''Function''' || synthesis of the antibiotic kanosamine
 |-
 |colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU10550 ntdA]
@@ Line 34: / Line 34: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
 <br/><br/>
@@ Line 71: / Line 67: @@
 * '''Catalyzed reaction/ biological activity:'''
 * '''Protein family:''' degT/dnrJ/eryC1 family (according to Swiss-Prot)
@@ Line 85: / Line 82: @@
 * '''Cofactor(s):'''
 * '''Effectors of protein activity:'''
@@ Line 110: / Line 108: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ntdA_1128286_1129611_-1 ntdA] {{PubMed|22383849}}
-* '''Sigma factor:''' [[SigA]] {{PubMed|14612444}}
+* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|14612444}}
 * '''Regulation:''' induced by 3,3'-neotrehalosadiamine ([[NtdR]]) {{PubMed|14612444}}
@@ Line 140: / Line 138: @@
 <pubmed> 21512256</pubmed>
 ==Original publications==
-<pubmed>19087206,19342798,17056753 ,14612444  </pubmed>
+<pubmed>19087206,19342798,17056753 ,14612444  23586652 </pubmed>
 [[Category:Protein-coding genes]]