LplD - Revision history

134.76.38.147 at 13:10, 2 April 2014

2014-04-02T13:10:13Z

Jstuelk: /* Expression and regulation */

2013-08-16T15:36:31Z

‎Expression and regulation

Jstuelk at 15:26, 16 August 2013

2013-08-16T15:26:50Z

Jstuelk at 15:25, 16 August 2013

2013-08-16T15:25:02Z

134.76.70.252 at 12:44, 16 May 2013

2013-05-16T12:44:41Z

134.76.70.252 at 09:40, 14 May 2013

2013-05-14T09:40:26Z

134.76.70.252 at 12:19, 13 May 2013

2013-05-13T12:19:50Z

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

2013-05-08T13:39:13Z

‎Categories containing this gene/protein

Raphael2215 at 09:16, 13 August 2012

2012-08-13T09:16:48Z

134.76.70.252 at 15:49, 6 August 2012

2012-08-06T15:49:07Z

← Older revision		Revision as of 13:10, 2 April 2014
Line 1:		Line 1:
−	* '''Description:''' α-galacturonidase <br/><br/>	+	{{#bank: LplD}}
−	{~~\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''lplD''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:~~#~~ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background~~:~~#ABCDEF;" align="center"\| '''Product''' \|\| α-galacturonidase~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| utilization of pectin~~
−	\|-
−	\|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=BSU07130 lplD]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 49 kDa, 5.356~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1338 bp, 446 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[lplC]]'', ''[[yetF]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07130 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07130 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07130 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:lplD_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=lplD_782958_784298_1 Expression at a glance]'''   {{PubMed\|22383849}~~}~~<br/>[[Image:lplD_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07130]]~~
−	\|-
−	\|}

−	~~__TOC__~~
−	~~<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\|[[sporulation proteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU07130
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10858]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−	** cleavage of α-1,4-di-galacturonate {{PubMed\|23416295}}
−
−	* '''Protein family:''' glycosyl hydrolase 4 family {{PubMed\|23416295}}
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−	** active site motif: CHEV {{PubMed\|23416295}}
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):''' NAD, Mn(2+) {{PubMed\|23416295}}
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=3FEF 3FEF]
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P39130 P39130]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU07130]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:'''
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=lplD_782958_784298_1 lplD] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:'''
−
−	* '''Regulation:'''
−
−	* '''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=~~
−	~~<pubmed> 23416295 </pubmed>~~
−	~~[[Category:Protein-coding genes]]~~

@@ Line 108: / Line 108: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=lplD_782958_784298_1 lplD] {{PubMed|22383849}}
-* '''Sigma factor:'''
+* '''[[Sigma factor]]:'''
 * '''Regulation:'''

@@ Line 37: / Line 37: @@
 = [[Categories]] containing this gene/protein =
-{{SubtiWiki category|[[poorly characterized/ putative enzymes]]}},
+{{SubtiWiki category|[[utilization of specific carbon sources]]}},
 {{SubtiWiki category|[[sporulation proteins]]}}

@@ Line 1: / Line 1: @@
-* '''Description:''' hydrolytic enzyme <br/><br/>
+* '''Description:''' α-galacturonidase <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''' || unknown
+|style="background:#ABCDEF;" align="center"| '''Product''' || α-galacturonidase
 |-
-|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
+|style="background:#ABCDEF;" align="center"|'''Function''' || utilization of pectin
 |-
 |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=BSU07130 lplD]
@@ Line 34: / Line 34: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
 <br/><br/>
@@ Line 71: / Line 67: @@
 * '''Catalyzed reaction/ biological activity:'''
-* '''Protein family:''' glycosyl hydrolase 4 family (according to Swiss-Prot)
+* '''Protein family:''' glycosyl hydrolase 4 family {{PubMed|23416295}}
 * '''Paralogous protein(s):'''
@@ Line 81: / Line 78: @@
 * '''Domains:'''
 * '''Modification:'''
-* '''Cofactor(s):'''
+* '''Cofactor(s):''' NAD, Mn(2+) {{PubMed|23416295}}
 * '''Effectors of protein activity:'''
@@ Line 137: / Line 135: @@
 =References=
+<pubmed> 23416295 </pubmed>
 [[Category:Protein-coding genes]]

@@ 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=lplD_782958_784298_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:lplD_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=lplD_782958_784298_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:lplD_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07130]]
 |-
 |}

@@ Line 21: / Line 21: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[lplC]]'', ''[[yetF]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07130 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07130 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07130 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07130 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07130 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07130 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:lplD_context.gif]]