RecJ - Revision history

Jstuelk at 11:23, 7 July 2015

2015-07-07T11:23:54Z

Jstuelk: /* Expression and regulation */

2015-07-07T11:07:57Z

‎Expression and regulation

Jstuelk at 11:07, 7 July 2015

2015-07-07T11:07:30Z

Jstuelk at 11:06, 7 July 2015

2015-07-07T11:06:12Z

Jstuelk: Jstuelk moved page YrvE to RecJ: 26001966

2015-07-07T08:48:09Z

Jstuelk moved page YrvE to RecJ: 26001966

134.76.38.147 at 14:22, 2 April 2014

2014-04-02T14:22:45Z

134.76.70.252 at 11:20, 7 January 2014

2014-01-07T11:20:41Z

134.76.70.252 at 09:00, 12 November 2013

2013-11-12T09:00:08Z

Jstuelk at 15:55, 13 September 2013

2013-09-13T15:55:13Z

134.76.70.252 at 14:07, 16 May 2013

2013-05-16T14:07:19Z

← Older revision		Revision as of 11:23, 7 July 2015
Line 1:		Line 1:
−	* '''Description:~~''' single-strand DNA-specific exonuclease <br/><br/>~~	+	{{#bank: RecJ}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''recJ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''yrvE''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| single-strand DNA-specific exonuclease~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| DNA repair~~
−	\|-
−	\|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=BSU27620 recJ]
−	\|-
−	\|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=RecJ RecJ]
−	\|-
−	\|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=yrvE recJ]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 87 kDa, 5.181~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 2358 bp, 786 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[apt]]'', ''[[yrvD]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU27620 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU27620 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU27620 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:yrvE_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=recJ_2823419_2825779_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:yrvE_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU27620]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[DNA repair/ recombination]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[stringent response]]}},~~
−	~~[[Efp-dependent proteins]]~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU27620
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU27620&redirect=T BSU27620]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yrvE-apt.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13804]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−
−	* '''Protein family:''' recJ family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):''' [[YorK]]
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** [[SsbA]]-[[RecJ]] {{PubMed\|21170359}}
−
−	* '''[[Localization]]:''' cytoplasm (according to Swiss-Prot)
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU27620&redirect=T BSU27620]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/O32044 O32044]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU27620]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[recJ]]-[[apt]]'' {{PubMed\|15241682}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=recJ_2823419_2825779_-1 recJ] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:'''
−
−	* '''Regulation:'''
−	** [[RelA]] dependent downregulation (Class I) during stringent response {{PubMed\|11948165}}
−
−	* '''Regulatory mechanism:'''
−
−	* '''Additional information:'''
−	** [[translation]] is likely to require [[Efp]] due to the presence of several consecutive proline residues {{PubMed\|23239624,23239623}}
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−	** GP895 (''[[recJ]]''::''kan''), available in [[Jörg Stülke]]'s lab
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~== Reviews ==~~
−	~~<pubmed> 22933559 </pubmed>~~
−	~~== Original publications ==~~
−	~~<pubmed>15241682 11948165 10498723 21170359,21205011</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 112: / Line 112: @@
 * '''Operon:''' ''[[recJ]]-[[apt]]'' {{PubMed|15241682}}
-* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=recJ_2823419_2825779_-1 yrvE] {{PubMed|22383849}}
+* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=recJ_2823419_2825779_-1 recJ] {{PubMed|22383849}}
 * '''[[Sigma factor]]:'''

@@ 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=BSU27620 recJ]
 |-
-|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=YrvE RecJ]
+|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=RecJ RecJ]
 |-
 |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=yrvE recJ]'''

@@ Line 4: / Line 4: @@
 |-
 |style="background:#ABCDEF;" align="center"|'''Gene name'''
-|''yrvE''
+|''recJ''
 |-
-|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''recJ ''
+|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yrvE''
 |-
 |style="background:#ABCDEF;" align="center"| '''Essential''' || no
@@ Line 14: / Line 14: @@
 |style="background:#ABCDEF;" align="center"|'''Function''' || DNA repair
 |-
-|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=BSU27620 yrvE]
+|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=BSU27620 recJ]
 |-
-|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=YrvE YrvE]
+|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=YrvE RecJ]
 |-
-|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=yrvE yrvE]'''
+|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=yrvE recJ]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 87 kDa, 5.181
@@ Line 91: / Line 91: @@
 * '''[[SubtInteract|Interactions]]:'''
-** [[SsbA]]-[[YrvE]] {{PubMed|21170359}}
+** [[SsbA]]-[[RecJ]] {{PubMed|21170359}}
 * '''[[Localization]]:''' cytoplasm (according to Swiss-Prot)
@@ Line 110: / Line 110: @@
 =Expression and regulation=
-* '''Operon:''' ''[[yrvE]]-[[apt]]'' {{PubMed|15241682}}
+* '''Operon:''' ''[[recJ]]-[[apt]]'' {{PubMed|15241682}}
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=recJ_2823419_2825779_-1 yrvE] {{PubMed|22383849}}
@@ Line 127: / Line 127: @@
 * '''Mutant:'''
-** GP895 (''recJ''::''kan''), available in [[Stülke]] lab
+** GP895 (''[[recJ]]''::''kan''), available in [[Jörg Stülke]]'s lab
 * '''Expression vector:'''

@@ Line 57: / Line 57: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yrvE-apt.html]
@@ Line 95: / Line 96: @@
 === Database entries ===
 * '''Structure:'''

← Older revision	Revision as of 08:48, 7 July 2015
(No difference)

@@ Line 12: / Line 12: @@
 |style="background:#ABCDEF;" align="center"| '''Product''' || single-strand DNA-specific exonuclease
 |-
-|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
+|style="background:#ABCDEF;" align="center"|'''Function''' || DNA repair
 |-
 |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=BSU27620 yrvE]
@@ Line 142: / Line 142: @@
 =References=
-'''Additional publications:''' {{PubMed|21170359,21205011}}
+== Reviews ==
-<pubmed>15241682 11948165 10498723</pubmed>
+<pubmed> 22933559 </pubmed>
 [[Category:Protein-coding genes]]

@@ 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=recJ_2823419_2825779_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yrvE_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=recJ_2823419_2825779_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yrvE_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU27620]]
 |-
 |}