YkgB - Revision history

134.76.70.252 at 14:18, 17 April 2014

2014-04-17T14:18:51Z

134.76.70.252 at 09:42, 17 April 2014

2014-04-17T09:42:48Z

134.76.38.147 at 13:30, 2 April 2014

2014-04-02T13:30:40Z

134.76.70.252 at 13:04, 16 May 2013

2013-05-16T13:04:33Z

134.76.70.252 at 10:00, 14 May 2013

2013-05-14T10:00:30Z

134.76.70.252 at 12:37, 13 May 2013

2013-05-13T12:37:48Z

Jstuelk at 16:16, 18 September 2012

2012-09-18T16:16:02Z

Jstuelk at 17:14, 11 September 2012

2012-09-11T17:14:24Z

134.76.70.252 at 10:51, 8 August 2012

2012-08-08T10:51:55Z

134.76.70.252 at 08:15, 7 August 2012

2012-08-07T08:15:43Z

← Older revision		Revision as of 14:18, 17 April 2014
Line 1:		Line 1:
−	* '''Description:''' 6-phosphogluconolactonase, general stress protein <br/><br/>	+	{{#bank: YkgB}}
−	{~~\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''ykgB''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:~~#~~ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background~~:~~#ABCDEF;" align="center"\| '''Product''' \|\| 6-phosphogluconolactonase~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| pentose phosphate pathway~~
−	\|-
−	\|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=BSU13010 ykgB]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 38 kDa, 5.154~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1047 bp, 349 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[ykfD]]'', ''[[ykgA]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU13010 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU13010 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU13010 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:ykgB_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=ykgB_1369876_1370925_-1 Expression at a glance]'''   {{PubMed\|22383849}~~}~~<br/>[[Image:ykgB_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU13010]]~~
−	\|-
−	\|}

−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[general stress proteins (controlled by SigB)]], [[carbon core metabolism]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[SigB regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU13010
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU13010&redirect=T BSU13010]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ykgAB.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13236]
−
−	~~=== Additional information===~~
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−	** 6-phosphogluconolactone --> 6-phosphogluconate (pentose phosphate pathway) {{PubMed\|22960854}}
−
−	* '''Protein family:''' cycloisomerase 2 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]]:'''
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU13010&redirect=T BSU13010]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/O34499 O34499]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13010]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/3.1.1.31 3.1.1.31]
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[ykgA]]-[[ykgB]]'' {{PubMed\|10482513}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ykgB_1369876_1370925_-1 ykgB] {{PubMed\|22383849}}
−
−	* '''Sigma factor:''' [[SigB]] {{PubMed\|10482513}}
−
−	* '''Regulation:'''
−	** induced by stress ([[SigB]]) {{PubMed\|10482513}}
−
−	* '''Regulatory mechanism:'''
−
−	* '''Additional information:'''
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 2628 {{PubMed\|24696501}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 7743 {{PubMed\|24696501}}
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	* '''FLAG-tag construct:''' GP1402 (spc, based on [[pGP1331]]), available in the [[Stülke]] lab
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~<pubmed>10482513 15576773 22960854</pubmed>~~
−	~~[[Category:Protein-coding genes]]~~

← Older revision		Revision as of 09:42, 17 April 2014
Line 114:		Line 114:

	* '''Additional information:'''		* '''Additional information:'''
		+	** number of protein molecules per cell (minimal medium with glucose and ammonium): 2628 {{PubMed\|24696501}}
		+	** number of protein molecules per cell (complex medium with amino acids, without glucose): 7743 {{PubMed\|24696501}}

	=Biological materials =		=Biological materials =

@@ Line 51: / Line 51: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ykgAB.html]
@@ Line 87: / Line 88: @@
 === Database entries ===
 * '''Structure:'''

@@ 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=ykgB_1369876_1370925_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ykgB_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ykgB_1369876_1370925_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ykgB_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU13010]]
 |-
 |}

@@ Line 21: / Line 21: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ykfD]]'', ''[[ykgA]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU13010 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU13010 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU13010 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU13010 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU13010 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU13010 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:ykgB_context.gif]]

@@ Line 13: / Line 13: @@
 |style="background:#ABCDEF;" align="center"|'''Function''' || pentose phosphate pathway
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU13010 ykgB]
+|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=BSU13010 ykgB]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 38 kDa, 5.154
@@ Line 21: / Line 21: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ykfD]]'', ''[[ykgA]]''
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB13158&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU13010 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU13010 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU13010 Advanced_DNA]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:ykgB_context.gif]]

@@ Line 34: / Line 34: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
 <br/><br/>
@@ Line 61: / Line 57: @@
 === Additional information===
@@ Line 70: / Line 63: @@
 === Basic information/ Evolution ===
-* '''Catalyzed reaction/ biological activity:''' the corresponding protein of ''E. coli'' is the 6-phosphogluconolactonase {{PubMed|15576773}}
+* '''Catalyzed reaction/ biological activity:'''
 * '''Protein family:''' cycloisomerase 2 family (according to Swiss-Prot)
@@ Line 140: / Line 134: @@
 =References=
-<pubmed>10482513  15576773  22960854</pubmed>
+<pubmed>10482513  15576773 22960854</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 1: / Line 1: @@
-* '''Description:''' putative 6-phosphogluconolactonase, general stress protein <br/><br/>
+* '''Description:''' 6-phosphogluconolactonase, general stress protein <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''' || putative 6-phosphogluconolactonase
+|style="background:#ABCDEF;" align="center"| '''Product''' || 6-phosphogluconolactonase
 |-
 |style="background:#ABCDEF;" align="center"|'''Function''' || pentose phosphate pathway
@@ Line 140: / Line 140: @@
 =References=
-{{PubMed|10482513,15576773}}
+<pubmed>10482513  15576773  22960854</pubmed>
 [[Category:Protein-coding genes]]