Dxs - Revision history

134.76.70.252 at 09:46, 17 April 2014

2014-04-17T09:46:15Z

134.76.38.147 at 14:10, 2 April 2014

2014-04-02T14:10:55Z

134.76.70.252 at 11:10, 7 January 2014

2014-01-07T11:10:58Z

Jstuelk: /* Original publications */

2013-07-11T11:49:09Z

‎Original publications

Jstuelk at 08:05, 9 July 2013

2013-07-09T08:05:55Z

134.76.70.252 at 13:52, 16 May 2013

2013-05-16T13:52:42Z

134.76.70.252 at 10:41, 14 May 2013

2013-05-14T10:41:20Z

134.76.70.252 at 13:15, 13 May 2013

2013-05-13T13:15:44Z

Jstuelk: /* Categories containing this gene/protein */

2012-08-28T06:25:40Z

‎Categories containing this gene/protein

134.76.70.252 at 11:31, 7 August 2012

2012-08-07T11:31:13Z

← Older revision		Revision as of 09:46, 17 April 2014
Line 1:		Line 1:
−	* '''Description:~~''' 1-deoxyxylulose-5-phosphate synthase, first step in the MEP pathway of isoprenoid biosynthesis<br/><br/>~~	+	{{#bank: Dxs}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''dxs''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''yqiE ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| 1-deoxyxylulose-5-phosphate synthase~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| biosynthesis of thiamine, MEP pathway of isoprenoid biosynthesis~~
−	\|-
−	\|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=BSU24270 dxs]
−	\|-
−	\|colspan="2" style="background:#FAF8CC;" align="center"\| '''Metabolic function and regulation of this protein in [[SubtiPathways\|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=dxs dxs]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 69 kDa, 6.002~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1899 bp, 633 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[yqxC]]'', ''[[yqiD]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24270 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24270 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24270 DNA_with_flanks]
−	\|-
−	\|-
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:dxs_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=dxs_2523713_2525614_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:dxs_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24270]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[biosynthesis of lipids]]}},~~
−	~~{{SubtiWiki category\|[[biosynthesis of cofactors]]}},~~
−	~~{{SubtiWiki category\|[[essential genes]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[stringent response]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU24270
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24270&redirect=T BSU24270]
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11715]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' Pyruvate + D-glyceraldehyde 3-phosphate = 1-deoxy-D-xylulose 5-phosphate + CO<sub>2</sub> (according to Swiss-Prot)
−
−	* '''Protein family:''' DXPS subfamily (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24270&redirect=T BSU24270]
−
−	* '''Structure:''' [http://www.proteopedia.org/wiki/index.php/2o1s 2O1S] (from ''E. coli'', 44% identity, 62% similarity) {{PubMed\|17135236}}
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P54523 P54523]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24270]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/2.2.1.7 2.2.1.7]
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:'''
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=dxs_2523713_2525614_-1 dxs] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:'''
−
−	* '''Regulation:'''
−	** [[RelA]] dependent downregulation (Class I) during stringent response {{PubMed\|11948165}}
−
−	* '''Regulatory mechanism:'''
−
−	* '''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>19348578 </pubmed>~~
−	~~==Original publications==~~
−	~~<pubmed>12882400,17135236 , 21296950 23840410 </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 60: / Line 60: @@
 === Database entries ===
 * '''DBTBS entry:''' no entry
@@ Line 97: / Line 98: @@
 === Database entries ===
 * '''Structure:''' [http://www.proteopedia.org/wiki/index.php/2o1s 2O1S] (from ''E. coli'', 44% identity, 62% similarity) {{PubMed|17135236}}

@@ 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=BSU24270 dxs]
 |-
-|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/thiamin.html Thiamin]'''
+|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=dxs dxs]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 69 kDa, 6.002

@@ Line 145: / Line 145: @@
 <pubmed>19348578 </pubmed>
 ==Original publications==
-<pubmed>12882400,17135236 , 21296950 </pubmed>
+<pubmed>12882400,17135236 , 21296950 23840410 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 1: / Line 1: @@
-* '''Description:''' 1-deoxyxylulose-5-phosphate synthase <br/><br/>
+* '''Description:''' 1-deoxyxylulose-5-phosphate synthase, first step in the MEP pathway of isoprenoid biosynthesis<br/><br/>
 {| align="right" border="1" cellpadding="2"
@@ Line 12: / Line 12: @@
 |style="background:#ABCDEF;" align="center"| '''Product''' || 1-deoxyxylulose-5-phosphate synthase
 |-
-|style="background:#ABCDEF;" align="center"|'''Function''' || biosynthesis of thiamine
+|style="background:#ABCDEF;" align="center"|'''Function''' || biosynthesis of thiamine, MEP pathway of isoprenoid biosynthesis
 |-
 |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=BSU24270 dxs]
@@ Line 39: / Line 39: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
-<br/><br/><br/><br/>
+<br/><br/>
 = [[Categories]] containing this gene/protein =
@@ Line 118: / Line 114: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=dxs_2523713_2525614_-1 dxs] {{PubMed|22383849}}
-* '''Sigma factor:'''
+* '''[[Sigma factor]]:'''
 * '''Regulation:'''

@@ 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=dxs_2523713_2525614_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:dxs_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=dxs_2523713_2525614_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:dxs_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24270]]
 |-
 |}

@@ Line 24: / Line 24: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yqxC]]'', ''[[yqiD]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24270 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24270 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24270 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24270 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24270 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24270 DNA_with_flanks]
 |-
 |-

@@ Line 46: / Line 46: @@
 = [[Categories]] containing this gene/protein =
 {{SubtiWiki category|[[biosynthesis of cofactors]]}},
 {{SubtiWiki category|[[essential genes]]}}