MsmE - Revision history

Jstuelk: /* Database entries */

2015-02-16T17:43:56Z

‎Database entries

Jstuelk: /* Database entries */

2015-02-16T16:54:21Z

‎Database entries

Julian at 12:53, 24 April 2014

2014-04-24T12:53:41Z

Julian at 11:05, 24 April 2014

2014-04-24T11:05:16Z

Julian at 08:22, 22 April 2014

2014-04-22T08:22:29Z

134.76.38.147 at 14:33, 2 April 2014

2014-04-02T14:33:43Z

134.76.70.252 at 11:30, 7 January 2014

2014-01-07T11:30:05Z

134.76.70.252 at 09:10, 12 November 2013

2013-11-12T09:10:35Z

134.76.70.252 at 14:21, 16 May 2013

2013-05-16T14:21:28Z

134.76.70.252 at 11:03, 14 May 2013

2013-05-14T11:03:52Z

← Older revision		Revision as of 17:43, 16 February 2015
Line 1:		Line 1:
−	* '''Description:~~''' probably [[ABC transporter]] for melibiose (binding protein) <br/><br/>~~	+	{{#bank: MsmE}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''msmE''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| [[ABC transporter]] (binding protein)~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| probably melibiose uptake~~
−	\|-
−	\|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=BSU30270 msmE]
−	\|-
−	\|colspan="2" style="background:#FAF8CC;" align="center"\| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=MsmE MsmE]
−	\|-
−	\|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=msmE msmE]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 48 kDa, 5.846~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1278 bp, 426 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[msmR]]'', ''[[amyD]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU30270 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU30270 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU30270 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:msmE_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=msmE_3097850_3099130_1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:msmE_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU30270]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<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\|[[ABC transporters]]}},~~
−	~~{{SubtiWiki category\|[[utilization of specific carbon sources]]}},~~
−	~~{{SubtiWiki category\|[[membrane proteins]]}},~~
−	~~{{SubtiWiki category\|[[sporulation proteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[CcpA regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU30270
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU30270&redirect=T BSU30270]
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12625]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−
−	* '''Protein family:'''
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** ([[AmyC]]-[[AmyD]])-[[MsmE]] {{PubMed\|10092453}}
−
−	* '''[[Localization]]:''' extracellular (signal peptide), associated to the cell membrane (via [[AmyC]]-[[AmyD]]) {{PubMed\|18957862,10092453}}
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU30270&redirect=T BSU30270]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/explore/explore.do?structureId=4RK9 4RK9] (the protein from ''B. licheniformis'', 59% identity, 88% similarity)
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/O34335 O34335]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU30270]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:'''
−	** ''[[msmR]]-[[msmE]]-[[amyD]]-[[amyC]]-[[melA]]'' {{PubMed\|22383849}}
−	** ''[[msmE]]-[[amyD]]-[[amyC]]-[[melA]]'' {{PubMed\|22383849}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=msmE_3097850_3099130_1 msmE] {{PubMed\|22383849}}
−
−	* '''Sigma factor:'''
−	** ''[[msmR]]'': [[SigA]] {{PubMed\|22900538}}
−
−	* '''Regulation:'''
−	** [[MsmR]]
−	** repressed by glucose ([[CcpA]]) {{PubMed\|22900538}}
−
−	* '''Regulatory mechanism:'''
−	** [[CcpA]]: transcription repression {{PubMed\|22900538}}
−
−	* '''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=~~
−
−	~~<pubmed>10092453,22383849 22900538,18957862, </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 100: / Line 100: @@
 * '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU30270&redirect=T BSU30270]
-* '''Structure:'''
+* '''Structure:''' [http://www.rcsb.org/pdb/explore/explore.do?structureId=4RK9 4RK9] (the protein from ''B. licheniformis'', 59% identity, 88% similarity)
 * '''UniProt:''' [http://www.uniprot.org/uniprot/O34335 O34335]

@@ Line 45: / Line 45: @@
 {{SubtiWiki category|[[utilization of specific carbon sources]]}},
 {{SubtiWiki category|[[membrane proteins]]}},
-{{SubtiWiki category|[[Sporulation#Sporulation_proteins/_other|sporulation proteins]]}}
+{{SubtiWiki category|[[sporulation proteins]]}}
 = This gene is a member of the following [[regulons]] =

@@ Line 45: / Line 45: @@
 {{SubtiWiki category|[[utilization of specific carbon sources]]}},
 {{SubtiWiki category|[[membrane proteins]]}},
-{{SubtiWiki category|[[sporulation/ other]]}}
+{{SubtiWiki category|[[Sporulation#Sporulation_proteins/_other|sporulation proteins]]}}
 = This gene is a member of the following [[regulons]] =

@@ Line 44: / Line 44: @@
 {{SubtiWiki category|[[ABC transporters]]}},
 {{SubtiWiki category|[[utilization of specific carbon sources]]}},
-{{SubtiWiki category|[[membrane proteins]]}}
+{{SubtiWiki category|[[membrane proteins]]}},
 = This gene is a member of the following [[regulons]] =

@@ Line 58: / Line 58: @@
 === Database entries ===
 * '''DBTBS entry:''' no entry
@@ Line 96: / Line 97: @@
 === Database entries ===
 * '''Structure:'''

@@ Line 18: / Line 18: @@
 |colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=MsmE MsmE]
 |-
-|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/carbohydrate_metabolic_pathways.html Sugar catabolism]'''
+|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=msmE msmE]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 48 kDa, 5.846

@@ 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=BSU30270 msmE]
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/MsmE MsmE]
+|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=MsmE MsmE]
 |-
 |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/carbohydrate_metabolic_pathways.html Sugar catabolism]'''

@@ 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=msmE_3097850_3099130_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:msmE_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=msmE_3097850_3099130_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:msmE_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU30270]]
 |-
 |}

@@ Line 26: / Line 26: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[msmR]]'', ''[[amyD]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU30270 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU30270 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU30270 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU30270 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU30270 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU30270 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:msmE_context.gif]]