LutB - Revision history

134.76.70.252 at 14:22, 17 April 2014

2014-04-17T14:22:21Z

134.76.70.252 at 09:56, 17 April 2014

2014-04-17T09:56:34Z

134.76.38.147 at 14:47, 2 April 2014

2014-04-02T14:47:59Z

134.76.70.252 at 11:42, 7 January 2014

2014-01-07T11:42:00Z

134.76.70.252 at 14:36, 16 May 2013

2013-05-16T14:36:37Z

134.76.70.252 at 11:18, 14 May 2013

2013-05-14T11:18:27Z

134.76.70.252 at 13:53, 13 May 2013

2013-05-13T13:53:06Z

134.76.70.252 at 16:04, 7 August 2012

2012-08-07T16:04:41Z

134.76.70.252 at 09:27, 23 April 2012

2012-04-23T09:27:02Z

Jstuelk at 14:51, 21 April 2012

2012-04-21T14:51:22Z

← Older revision		Revision as of 14:22, 17 April 2014
Line 1:		Line 1:
−	* '''Description:~~''' lactate catabolic enzyme <br/><br/>~~	+	{{#bank: LutB}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''lutB''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''yvfW ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| lactate oxidase~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| lactate utilization~~
−	\|-
−	\|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=BSU34040 lutB]
−	\|-
−	\|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=lutB lutB]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 53 kDa, 5.848~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1437 bp, 479 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[lutC]]'', ''[[lutA]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU34040 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU34040 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU34040 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:yvfW_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=yvfW_3493519_3494958_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:lutB_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU34040]]
−	\|-
−	\|}
−
−	~~__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\|[[utilization of specific carbon sources]]}},~~
−	~~{{SubtiWiki category\|[[phosphoproteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[FbpB regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[FsrA regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[LutR regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[SinR regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU34040
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~no growth with lactate as the single carbon source [http://www.ncbi.nlm.nih.gov/sites/entrez/19201793 PubMed]~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU34040&redirect=T BSU34040]
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12448]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' oxidation of lactate to pyruvate [http://www.ncbi.nlm.nih.gov/sites/entrez/19201793 PubMed]
−
−	* '''Protein family:'''
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−	** phosphorylated on Arg-33 {{PubMed\|22517742}}
−
−	* '''Cofactor(s):''' contains an iron-sulfur cluster
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU34040&redirect=T BSU34040]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/O07021 O07021]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU34040]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[lutA]]-[[lutB]]-[[lutC]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/19201793 PubMed]
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yvfW_3493519_3494958_-1 lutB] {{PubMed\|22383849}}
−
−	* '''Sigma factor:'''
−
−	* '''Regulation:'''
−	** repressed by [[SinR]] [http://www.ncbi.nlm.nih.gov/sites/entrez/19201793 PubMed]
−	** induction by lactate [http://www.ncbi.nlm.nih.gov/sites/entrez/19201793 PubMed]
−	** less expressed under conditions of extreme iron limitation ([[FsrA]]) [http://www.ncbi.nlm.nih.gov/pubmed/18697947 PubMed]
−	** part of the iron sparing response, down-regulation in a'' [[fur]]'' mutant ([[Fur]], [[FsrA]], [[FpbB]]) {{PubMed\|22427629}}
−
−	* '''Regulatory mechanism:'''
−	** [[SinR]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/19201793 PubMed]
−	** dual repression by [[LutR]] (inducer lactate) and [[SinR]] [http://www.ncbi.nlm.nih.gov/sites/entrez/19201793 PubMed]
−	** [[FsrA]]: translational repression {{PubMed\|22427629,18697947}}
−	** [[FbpB]]: acts as RNA chaperone, increases interaction between ''[[fsrA]]'' and ''[[lutA]]-[[lutB]]-[[lutC]]'' RNAs {{PubMed\|22427629}}
−
−	* '''Additional information:'''
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 246 {{PubMed\|24696501}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 4124 {{PubMed\|24696501}}
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~[[Richard Losick]], Harvard Univ., Cambridge, USA [http://www.mcb.harvard.edu/Losick/ homepage]~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−
−	~~<pubmed>22427629,18697947,16430695,22389480,19201793, 19201793 22517742</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

← Older revision		Revision as of 09:56, 17 April 2014
Line 136:		Line 136:

	* '''Additional information:'''		* '''Additional information:'''
		+	** number of protein molecules per cell (minimal medium with glucose and ammonium): 246 {{PubMed\|24696501}}
		+	** number of protein molecules per cell (complex medium with amino acids, without glucose): 4124 {{PubMed\|24696501}}

	=Biological materials =		=Biological materials =

@@ Line 64: / Line 64: @@
 === Database entries ===
 * '''DBTBS entry:''' no entry
@@ Line 102: / Line 103: @@
 === Database entries ===
 * '''Structure:'''

@@ 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=BSU34040 lutB]
 |-
-|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/carbon_flow.html Central C-metabolism]'''
+|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=lutB lutB]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 53 kDa, 5.848

@@ Line 29: / Line 29: @@
   <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=yvfW_3493519_3494958_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:lutB_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yvfW_3493519_3494958_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:lutB_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU34040]]
 |-
 |}

@@ Line 24: / Line 24: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[lutC]]'', ''[[lutA]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU34040 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU34040 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU34040 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU34040 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU34040 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU34040 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:yvfW_context.gif]]

@@ Line 13: / Line 13: @@
 |-
 |style="background:#ABCDEF;" align="center"|'''Function''' || lactate utilization
 |-
 |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/carbon_flow.html Central C-metabolism]'''

@@ Line 81: / Line 81: @@
 * '''Modification:'''
 * '''Cofactor(s):''' contains an iron-sulfur cluster
@@ Line 146: / Line 147: @@
 =References=
-<pubmed>22427629,18697947,16430695,22389480,19201793, 19201793 </pubmed>
+<pubmed>22427629,18697947,16430695,22389480,19201793, 19201793 22517742</pubmed>
 [[Category:Protein-coding genes]]