PghL - Revision history

Jstuelk: /* Basic information/ Evolution */

2015-07-13T09:01:42Z

‎Basic information/ Evolution

Jstuelk at 08:56, 13 July 2015

2015-07-13T08:56:25Z

Jstuelk at 08:55, 13 July 2015

2015-07-13T08:55:58Z

Jstuelk: /* The protein */

2015-07-13T08:41:17Z

‎The protein

Jstuelk at 08:34, 13 July 2015

2015-07-13T08:34:03Z

Jstuelk: /* References */

2015-07-13T08:29:19Z

‎References

Jstuelk: Jstuelk moved page YndL to PghL: 26158264

2015-07-13T08:26:59Z

Jstuelk moved page YndL to PghL: 26158264

134.76.38.147 at 13:50, 2 April 2014

2014-04-02T13:50:01Z

134.76.70.252 at 13:28, 16 May 2013

2013-05-16T13:28:37Z

134.76.70.252 at 10:20, 14 May 2013

2013-05-14T10:20:29Z

← Older revision		Revision as of 09:01, 13 July 2015
Line 1:		Line 1:
−	* '''Description:~~''' phage-derived gamma polyglutamic acid hydrolase, [[sporulation]] protein <br/><br/>~~	+	{{#bank: PghL}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''pghL''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''yndL ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| phage-derived gamma polyglutamic acid hydrolase~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| polyglutamic acid degradation~~
−	\|-
−	\|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=BSU17820 pghL]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 28 kDa, 6.92~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 756 bp, 252 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[surA]]'', ''[[yndM]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU17820 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU17820 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU17820 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:yndL_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=yndL_1915221_1915979_1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:yndL_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU17820]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[capsule biosynthesis and degradation]]}},~~
−	~~{{SubtiWiki category\|[[sporulation proteins]]}},~~
−	~~{{SubtiWiki category\|[[membrane proteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[SigK regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU17820
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU17820&redirect=T BSU17820]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yndL.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13448]
−
−	~~=== Additional information===~~
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−	** hyhrolysis of polyglutamic acid {{PubMed\|26158264}}
−
−	* '''Protein family:''' UPF0714 family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):''' [[PghB]], [[PghC]], [[PghZ]]
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''[[Domains]]:''' DUF867 [http://pfam.xfam.org/family/PF05908], [[gamma-PGA hydrolase domain]] {{PubMed\|26158264}}
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−	** cell membrane (according to Swiss-Prot)
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU17820&redirect=T BSU17820]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/O31815 O31815]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU17820]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''pghL'' [http://www.ncbi.nlm.nih.gov/sites/entrez/16385044 PubMed]
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yndL_1915221_1915979_1 pghL] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigK]] {{PubMed\|15699190,16385044}}
−
−	* '''Regulation:''' expressed during [[sporulation]] in the mother cell[http://www.ncbi.nlm.nih.gov/sites/entrez/16385044 PubMed]
−
−	* '''Regulatory mechanism:'''
−
−	* '''Additional information:'''
−	** An [[ncRNA\|antisense RNA]], ''[[surA]]'', is predicted for ''[[pghL]]'' {{PubMed\|20525796}}
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−
−	~~<pubmed>16385044, 20525796 26158264</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

← Older revision		Revision as of 08:56, 13 July 2015
Line 1:		Line 1:
−	* '''Description:''' phage-derived gamma polyglutamic acid hydrolase, sporulation protein <br/><br/>	+	* '''Description:''' phage-derived gamma polyglutamic acid hydrolase, [[sporulation]] protein <br/><br/>

	{\| align="right" border="1" cellpadding="2"		{\| align="right" border="1" cellpadding="2"

@@ Line 4: / Line 4: @@
 |-
 |style="background:#ABCDEF;" align="center"|'''Gene name'''
-|''yndL''
+|''pghL''
 |-
-|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
+|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yndL ''
 |-
 |style="background:#ABCDEF;" align="center"| '''Essential''' || no
@@ Line 14: / Line 14: @@
 |style="background:#ABCDEF;" align="center"|'''Function''' || polyglutamic acid degradation
 |-
-|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=BSU17820 yndL]
+|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=BSU17820 pghL]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 28 kDa, 6.92
@@ Line 105: / Line 105: @@
 =Expression and regulation=
-* '''Operon:''' ''yndL'' [http://www.ncbi.nlm.nih.gov/sites/entrez/16385044 PubMed]
+* '''Operon:''' ''pghL'' [http://www.ncbi.nlm.nih.gov/sites/entrez/16385044 PubMed]
-* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yndL_1915221_1915979_1 yndL] {{PubMed|22383849}}
+* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yndL_1915221_1915979_1 pghL] {{PubMed|22383849}}
 * '''[[Sigma factor]]:''' [[SigK]] {{PubMed|15699190,16385044}}
-* '''Regulation:''' expressed during sporulation in the mother cell[http://www.ncbi.nlm.nih.gov/sites/entrez/16385044 PubMed]
+* '''Regulation:''' expressed during [[sporulation]] in the mother cell[http://www.ncbi.nlm.nih.gov/sites/entrez/16385044 PubMed]
 * '''Regulatory mechanism:'''
 * '''Additional information:'''
-** An [[ncRNA|antisense RNA]], ''[[surA]]'', is predicted for ''[[yndL]]'' {{PubMed|20525796}}
+** An [[ncRNA|antisense RNA]], ''[[surA]]'', is predicted for ''[[pghL]]'' {{PubMed|20525796}}
 =Biological materials =

@@ Line 67: / Line 67: @@
 * '''Catalyzed reaction/ biological activity:'''
 * '''Protein family:''' UPF0714 family (according to Swiss-Prot)
-* '''Paralogous protein(s):'''
+* '''Paralogous protein(s):''' [[PghB]], [[PghC]], [[PghZ]]
 === Extended information on the protein ===
@@ Line 76: / Line 77: @@
 * '''Kinetic information:'''
-* '''Domains:'''
+* '''[[Domains]]:''' DUF867 [http://pfam.xfam.org/family/PF05908], [[gamma-PGA hydrolase domain]] {{PubMed|26158264}}
 * '''Modification:'''

@@ Line 1: / Line 1: @@
-* '''Description:''' sporulation protein <br/><br/>
+* '''Description:''' phage-derived gamma polyglutamic acid hydrolase, sporulation protein <br/><br/>
 {| align="right" border="1" cellpadding="2"
@@ Line 10: / Line 10: @@
 |style="background:#ABCDEF;" align="center"| '''Essential''' || no
 |-
-|style="background:#ABCDEF;" align="center"| '''Product''' || unknown
+|style="background:#ABCDEF;" align="center"| '''Product''' || phage-derived gamma polyglutamic acid hydrolase
 |-
-|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
+|style="background:#ABCDEF;" align="center"|'''Function''' || polyglutamic acid degradation
 |-
 |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=BSU17820 yndL]
@@ Line 38: / Line 38: @@
 = [[Categories]] containing this gene/protein =
 {{SubtiWiki category|[[sporulation proteins]]}},
 {{SubtiWiki category|[[membrane proteins]]}}

@@ Line 136: / Line 136: @@
 =References=
-<pubmed>16385044, 20525796</pubmed>
+<pubmed>16385044, 20525796 26158264</pubmed>
 [[Category:Protein-coding genes]]

← Older revision	Revision as of 08:26, 13 July 2015
(No difference)

@@ Line 53: / Line 53: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yndL.html]
@@ Line 88: / Line 89: @@
 === Database entries ===
 * '''Structure:'''

@@ Line 27: / Line 27: @@
   <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=yndL_1915221_1915979_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yndL_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yndL_1915221_1915979_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yndL_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU17820]]
 |-
 |}

@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[surA]]'', ''[[yndM]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU17820 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU17820 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU17820 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU17820 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU17820 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU17820 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:yndL_context.gif]]