|
|
| (12 intermediate revisions by 3 users not shown) |
| Line 1: |
Line 1: |
| * '''Description:''' ATP-dependent deoxyribonuclease (subunit B) <br/><br/>
| | {{#bank: AddB}} |
| {| align="right" border="1" cellpadding="2" | |
| |-
| |
| |style="background:#ABCDEF;" align="center"|'''Gene name'''
| |
| |''addB''
| |
| |-
| |
| |style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
| |
| |-
| |
| |style="background:#ABCDEF;" align="center"| '''Essential''' || no
| |
| |-
| |
| |style="background:#ABCDEF;" align="center"| '''Product''' || ATP-dependent deoxyribonuclease (subunit B))
| |
| |-
| |
| |style="background:#ABCDEF;" align="center"|'''Function''' || [[DNA repair/ recombination]]
| |
| |-
| |
| |colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU10620 addB]
| |
| |-
| |
| |colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/AddB AddB]
| |
| |-
| |
| |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 134 kDa, 5.39
| |
| |-
| |
| |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 3498 bp, 1166 aa
| |
| |-
| |
| |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yhjR]]'', ''[[addA]]''
| |
| |-
| |
| |colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB12902]+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
| |
| |-
| |
| |-
| |
| |-
| |
| |colspan="2" | '''Genetic context''' <br/> [[Image:addB_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=addB_1136320_1139820_1 Expression at a glance]'''   {{PubMed|22383849}}<br/>[[Image:addB_expression.png|500px]]
| |
| |-
| |
| |}
| |
|
| |
|
| __TOC__
| |
| <br/><br/><br/><br/>
| |
| <br/><br/><br/><br/>
| |
| <br/><br/><br/><br/>
| |
| <br/><br/><br/><br/>
| |
|
| |
| = [[Categories]] containing this gene/protein =
| |
| {{SubtiWiki category|[[DNA repair/ recombination]]}},
| |
| {{SubtiWiki category|[[genetic competence]]}}
| |
|
| |
| = This gene is a member of the following [[regulons]] =
| |
| {{SubtiWiki regulon|[[ComK regulon]]}}
| |
|
| |
| =The gene=
| |
|
| |
| === Basic information ===
| |
|
| |
| * '''Locus tag:''' BSU10620
| |
|
| |
| ===Phenotypes of a mutant ===
| |
|
| |
| === Database entries ===
| |
|
| |
| * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/addBA.html]
| |
|
| |
| * '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10465]
| |
|
| |
| === Additional information===
| |
|
| |
|
| |
|
| |
| =The protein=
| |
|
| |
| === Basic information/ Evolution ===
| |
|
| |
| * '''Catalyzed reaction/ biological activity:'''
| |
| ** the enzyme is functional as a heterodimer of the [[AddA]] and [[AddB]] subunits, that it is a rapid and processive DNA helicase, and that it catalyses DNA unwinding using one single-stranded DNA motor of 3'→5' polarity located in the [[AddA]] subunit {{PubMed|21071401}}
| |
| ** the [[AddB]] subunit contains a second putative ATP-binding pocket, but this does not contribute to the observed helicase activity and may instead be involved in the recognition of recombination hotspot sequences {{PubMed|21071401}}
| |
|
| |
| * '''Protein family:''' uvrD-like helicase C-terminal domain (according to Swiss-Prot)
| |
|
| |
| * '''Paralogous protein(s):'''
| |
|
| |
| === Extended information on the protein ===
| |
|
| |
| * '''Kinetic information:'''
| |
|
| |
| * '''Domains:'''
| |
|
| |
| * '''Modification:'''
| |
|
| |
| * '''Cofactor(s):'''
| |
|
| |
| * '''Effectors of protein activity:'''
| |
|
| |
| * '''[[SubtInteract|Interactions]]:'''
| |
| ** [[AddA]]-[[AddB]] {{PubMed|10756102,21071401}}
| |
|
| |
| * '''[[Localization]]:'''
| |
|
| |
| === Database entries ===
| |
|
| |
| * '''Structure:'''
| |
| ** [http://www.rcsb.org/pdb/explore/explore.do?structureId=3U4Q 3U4Q] (the [[AddA]]-[[AddB]]-DNA complex) {{PubMed|22307084}}
| |
|
| |
| * '''UniProt:''' [http://www.uniprot.org/uniprot/P23477 P23477]
| |
|
| |
| * '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU10620]
| |
|
| |
| * '''E.C. number:'''
| |
|
| |
| === Additional information===
| |
|
| |
| =Expression and regulation=
| |
|
| |
| * '''Operon:''' ''[[addB]]-[[addA]]-[[sbcD]]-[[sbcC]]-[[hlpB]]'' {{PubMed|22383849}}
| |
|
| |
| * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=addB_1136320_1139820_1 addB] {{PubMed|22383849}}
| |
|
| |
| * '''Sigma factor:''' [[SigA]] {{PubMed|7746142}}
| |
|
| |
| * '''Regulation:'''
| |
| ** positive control by [[ComK]] {{PubMed|7746142}}
| |
|
| |
| * '''Regulatory mechanism:'''
| |
|
| |
| * '''Additional information:'''
| |
|
| |
| =Biological materials =
| |
|
| |
| * '''Mutant:''' GP1106 (addAB, spc), available in [[Stülke]] lab
| |
|
| |
| * '''Expression vector:'''
| |
|
| |
| * '''lacZ fusion:'''
| |
|
| |
| * '''GFP fusion:'''
| |
|
| |
| * '''two-hybrid system:'''
| |
|
| |
| * '''Antibody:'''
| |
|
| |
| =Labs working on this gene/protein=
| |
| * [[Mark Dillingham]], Bristol, U.K. ([http://www.bris.ac.uk/biochemistry/research/md.html homepage])
| |
|
| |
| =Your additional remarks=
| |
|
| |
| =References=
| |
| ==Reviews==
| |
| <pubmed> 23202527, 20116346 </pubmed>
| |
|
| |
| ==Original publications==
| |
| '''Additional publications:''' {{PubMed|21071401}}
| |
| <pubmed>21809208,8387145,15610857,7746142, 19129187 1646786 10756102 9781875 17570399 20350930 22307084 22383849 23056615</pubmed>
| |
| [[Category:Protein-coding genes]]
| |
