DefA - Revision history

Jstuelk at 12:30, 20 August 2013

2013-08-20T12:30:03Z

Jstuelk at 12:29, 20 August 2013

2013-08-20T12:29:28Z

Jstuelk at 12:24, 20 August 2013

2013-08-20T12:24:04Z

Jstuelk: /* Basic information/ Evolution */

2013-08-18T11:03:16Z

‎Basic information/ Evolution

Jstuelk at 10:58, 18 August 2013

2013-08-18T10:58:03Z

Jstuelk: Jstuelk moved page Def to DefA: 23944997

2013-08-18T10:55:32Z

Jstuelk moved page Def to DefA: 23944997

134.76.70.252 at 13:19, 16 May 2013

2013-05-16T13:19:03Z

134.76.70.252 at 10:11, 14 May 2013

2013-05-14T10:11:36Z

134.76.70.252 at 12:47, 13 May 2013

2013-05-13T12:47:59Z

134.76.70.252 at 09:33, 7 August 2012

2012-08-07T09:33:13Z

← Older revision		Revision as of 12:30, 20 August 2013
Line 1:		Line 1:
−	* '''Description:~~''' formylmethionine deformylase <br/><br/>~~	+	{{#bank: DefA}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''defA''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''yloK, def ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| formylmethionine deformylase~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| [[translation]]~~
−	\|-
−	\|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=BSU15720 defA]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 17 kDa, 4.731~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 480 bp, 160 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[priA]]'', ''[[fmt]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU15720 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU15720 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU15720 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:def_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=defA_1646512_1646994_1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:def_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU15720]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[translation]]}},~~
−	~~{{SubtiWiki category\|[[protein modification]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU15720
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11933]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' Formyl-L-methionyl peptide + H<sub>2</sub>O = formate + methionyl peptide (according to Swiss-Prot)
−
−	* '''Protein family:''' polypeptide deformylase family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):''' [[DefB]]
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** [[DefA]]-[[RplV]] {{PubMed\|18288106}}
−	** [[Map]] competes with peptide deformylase ([[DefA]]), the first enzyme to act on nascent chains, for binding sites at the ribosomal tunnel exit {{PubMed\|23770820}}
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P94462 P94462]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU15720]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/3.5.1.88 3.5.1.88]
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[defA]]-[[fmt]]-[[yloM]]'' {{PubMed\|16964327}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=defA_1646512_1646994_1 defA] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigA]] ''[[defA]]-[[fmt]]-[[yloM]]'' {{PubMed\|16964327}}
−
−	* '''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>11429456,12627383, 18288106 16964327 23770820</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 87: / Line 87: @@
 * '''[[SubtInteract|Interactions]]:'''
 ** [[DefA]]-[[RplV]] {{PubMed|18288106}}
 * '''[[Localization]]:'''
@@ Line 135: / Line 136: @@
 =References=
-<pubmed>11429456,12627383, 18288106 16964327</pubmed>
+<pubmed>11429456,12627383, 18288106 16964327 23770820</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 86: / Line 86: @@
 * '''[[SubtInteract|Interactions]]:'''
 * '''[[Localization]]:'''
@@ Line 134: / Line 135: @@
 =References=
-'''Additional publications:''' {{PubMed|16964327}}
+<pubmed>11429456,12627383, 18288106 16964327</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 71: / Line 71: @@
 * '''Protein family:''' polypeptide deformylase family (according to Swiss-Prot)
-* '''Paralogous protein(s):'''
+* '''Paralogous protein(s):''' [[DefB]]
 === Extended information on the protein ===

@@ Line 4: / Line 4: @@
 |-
 |style="background:#ABCDEF;" align="center"|'''Gene name'''
-|''def''
+|''defA''
 |-
-|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yloK ''
+|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yloK, def ''
 |-
 |style="background:#ABCDEF;" align="center"| '''Essential''' || no
@@ Line 12: / Line 12: @@
 |style="background:#ABCDEF;" align="center"| '''Product''' || formylmethionine deformylase
 |-
-|style="background:#ABCDEF;" align="center"|'''Function''' || translation
+|style="background:#ABCDEF;" align="center"|'''Function''' || [[translation]]
 |-
-|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=BSU15720 def]
+|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=BSU15720 defA]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 17 kDa, 4.731
@@ Line 35: / Line 35: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
 <br/><br/>
@@ Line 107: / Line 103: @@
 =Expression and regulation=
-* '''Operon:''' ''[[def]]-[[fmt]]-[[yloM]]'' [http://www.ncbi.nlm.nih.gov/pubmed/16964327?ordinalpos=5&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_DefaultReportPanel.Pubmed_RVDocSum PubMed]
+* '''Operon:''' ''[[defA]]-[[fmt]]-[[yloM]]'' {{PubMed|16964327}}
-* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=defA_1646512_1646994_1 def] {{PubMed|22383849}}
+* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=defA_1646512_1646994_1 defA] {{PubMed|22383849}}
-* '''Sigma factor:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/pubmed/16964327?ordinalpos=5&itool=EntrezSystem2.PEntrez.Pubmed.Pubmed_ResultsPanel.Pubmed_DefaultReportPanel.Pubmed_RVDocSum PubMed]
+* '''[[Sigma factor]]:''' [[SigA]] ''[[defA]]-[[fmt]]-[[yloM]]'' {{PubMed|16964327}}
 * '''Regulation:'''

← Older revision	Revision as of 10:55, 18 August 2013
(No difference)

@@ 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=defA_1646512_1646994_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:def_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=defA_1646512_1646994_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:def_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU15720]]
 |-
 |}

@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[priA]]'', ''[[fmt]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU15720 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU15720 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU15720 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU15720 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU15720 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU15720 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:def_context.gif]]