LytD - Revision history

134.76.38.147 at 14:57, 2 April 2014

2014-04-02T14:57:48Z

134.76.70.252 at 14:43, 16 May 2013

2013-05-16T14:43:58Z

134.76.70.252 at 11:26, 14 May 2013

2013-05-14T11:26:10Z

134.76.70.252 at 14:00, 13 May 2013

2013-05-13T14:00:51Z

134.76.70.252 at 12:29, 19 September 2012

2012-09-19T12:29:39Z

134.76.70.252 at 12:29, 19 September 2012

2012-09-19T12:29:28Z

134.76.70.252 at 16:38, 7 August 2012

2012-08-07T16:38:27Z

134.76.70.252 at 10:35, 23 April 2012

2012-04-23T10:35:05Z

134.76.70.252 at 07:48, 17 April 2012

2012-04-17T07:48:04Z

Jstuelk at 11:34, 15 August 2011

2011-08-15T11:34:35Z

← Older revision		Revision as of 14:57, 2 April 2014
Line 1:		Line 1:
−	* '''Description:~~''' glucosaminidase <br/><br/>~~	+	{{#bank: LytD}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''lytD''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''cwlG ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| glucosaminidase~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| major autolysin, cell separation~~
−	\|-
−	\|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=BSU35780 lytD]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 95 kDa, 9.935~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 2640 bp, 880 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[tagC]]'', ''[[pmi]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU35780 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU35780 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU35780 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:lytD_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=lytD_3684826_3687468_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:lytD_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU35780]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<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\|[[cell wall degradation/ turnover]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[SigD regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU35780
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/lytD.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10455]
−
−	~~=== Additional information===~~
−	* A mutation was found in this gene after evolution under relexed selection for sporulation {{PubMed\|21821766}}
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' Endohydrolysis of the N,N'-diacetylchitobiosyl unit in high-mannose glycopeptides and glycoproteins containing the -(Man(GlcNAc)<sub>2</sub>)Asn-structure (according to Swiss-Prot)
−
−	* '''Protein family:''' glycosyl hydrolase 73 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]]:'''
−	** extracellular (signal peptide) [http://www.ncbi.nlm.nih.gov/pubmed/18957862 PubMed]
−
−	~~=== Database entries ===~~
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P39848 P39848]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU35780]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/3.2.1.96 3.2.1.96]
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[lytD]]'' {{PubMed\|7934877}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=lytD_3684826_3687468_-1 lytD] {{PubMed\|22383849}}
−
−	* '''Sigma factor:''' [[SigD]] {{PubMed\|7934877}}
−
−	* '''Regulation:'''
−
−	* '''Regulatory mechanism:'''
−
−	* '''Additional information:'''
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−	** 1A788 ( ''lytD''::''tet''), {{PubMed\|7934877}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A788&Search=1A788 BGSC]
−	** 1A792 ( ''lytD''::''tet''), {{PubMed\|1588906}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A792&Search=1A792 BGSC]
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−
−	~~<pubmed>7934877,19542270 ,18957862, 21821766</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ 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=lytD_3684826_3687468_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:lytD_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=lytD_3684826_3687468_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:lytD_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU35780]]
 |-
 |}

@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[tagC]]'', ''[[pmi]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU35780 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU35780 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU35780 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU35780 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU35780 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU35780 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:lytD_context.gif]]

@@ Line 14: / Line 14: @@
 |style="background:#ABCDEF;" align="center"|'''Function''' || major autolysin, cell separation
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU35780 lytD]
+|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=BSU35780 lytD]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 95 kDa, 9.935
@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[tagC]]'', ''[[pmi]]''
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15595&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU35780 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU35780 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU35780 Advanced_DNA]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:lytD_context.gif]]

@@ Line 121: / Line 121: @@
 * '''Mutant:'''
 ** 1A788 ( ''lytD''::''tet''), {{PubMed|7934877}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A788&Search=1A788 BGSC]
 * '''Expression vector:'''

← Older revision		Revision as of 12:29, 19 September 2012
Line 120:		Line 120:

	* '''Mutant:'''		* '''Mutant:'''
		+	** 1A788 ( ''lytD''::''tet''), {{PubMed\|7934877}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A788&Search=1A788 BGSC]

	* '''Expression vector:'''		* '''Expression vector:'''

@@ Line 97: / Line 97: @@
 * '''Operon:''' ''[[lytD]]'' {{PubMed|7934877}}
-* '''[[Sigma factor]]:''' [[SigD]] {{PubMed|7934877}}
+* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=lytD_3684826_3687468_-1 lytD] {{PubMed|22383849}}
 * '''Regulation:'''

@@ Line 76: / Line 76: @@
 * '''Effectors of protein activity:'''
-* '''Interactions:'''
+* '''[[SubtInteract|Interactions]]:'''
-* '''Localization:''' secreted (according to Swiss-Prot),  extracellular (signal peptide) [http://www.ncbi.nlm.nih.gov/pubmed/18957862 PubMed]
+* '''[[Localization]]:'''
 === Database entries ===
@@ Line 124: / Line 125: @@
 =References=
-<pubmed>7934877,19542270 ,18957862, </pubmed>
+<pubmed>7934877,19542270 ,18957862, 21821766</pubmed>
 [[Category:Protein-coding genes]]