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| * '''Description:''' transcriptional regulator of post-exponential-phase responses genes <br/><br/>
| | {{#bank: SinR}} |
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| {| align="right" border="1" cellpadding="2"
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| |style="background:#ABCDEF;" align="center"|'''Gene name'''
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| |''sinR''
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| |-
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| |style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''sin, flaD ''
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| |-
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| |style="background:#ABCDEF;" align="center"| '''Essential''' || no
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| |style="background:#ABCDEF;" align="center"| '''Product''' || transcriptional regulator of post-exponential-phase responses genes
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| |style="background:#ABCDEF;" align="center"|'''Function''' || control of [[biofilm formation]]
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| |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/SinR SinR]
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| |colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/biofilm.html Biofilm], [http://subtiwiki.uni-goettingen.de/pathways/carbon_flow.html Central C-metabolism], [http://subtiwiki.uni-goettingen.de/wiki/index.php/Protein_secretion Protein secretion]'''
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| |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 12 kDa, 7.177
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| |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 333 bp, 111 aa
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| |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[sinI]]'', ''[[tasA]]''
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| |colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+[EMBLCDS:CAB14392]+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
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| |colspan="2" | '''Genetic context''' <br/> [[Image:sinR_context.gif]]
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| <div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
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| |-
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| |}
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| __TOC__
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| <br/><br/><br/><br/>
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| = [[Categories]] containing this gene/protein =
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| {{SubtiWiki category|[[transcription factors and their control]]}},
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| {{SubtiWiki category|[[transition state regulators]]}},
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| {{SubtiWiki category|[[biofilm formation]]}}
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|
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| = This gene is a member of the following [[regulons]] =
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| {{SubtiWiki regulon|[[AbrB regulon]]}},
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| {{SubtiWiki regulon|[[ScoC regulon]]}},
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| {{SubtiWiki regulon|[[Spo0A regulon]]}}
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|
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| =The [[SinR regulon]]=
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| =The gene=
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| === Basic information ===
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| * '''Locus tag:''' BSU24610
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| ===Phenotypes of a mutant ===
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| === Database entries ===
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| * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sinIR.html]
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| * '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10754]
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| === Additional information===
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| =The protein=
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| === Basic information/ Evolution ===
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| * '''Catalyzed reaction/ biological activity:''' transcription repressor of biofilm genes, acts as co-repressor for [[SlrR]] {{PubMed|20351052}}
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| * '''Protein family:'''
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| * '''Paralogous protein(s):''' [[SlrR]]
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| === Extended information on the protein ===
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| * '''Kinetic information:'''
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| * '''Domains:'''
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| ** DNA-binding N-terminal domain (aa 1-69) {{PubMed|21708175}}
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| ** [[SinI]]-binding C-terminal domain (aa 74-111) {{PubMed|21708175}}
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| * '''Modification:'''
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| * '''Cofactor(s):'''
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| * '''Effectors of protein activity:'''
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| ** [[SinI]] and [[SlrA]] are antagonists to [[SinR]] {{PubMed|19788541}}
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| ** [[SlrR]] is also antagonist of [[SinR]] {{PubMed|20351052}}
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| * '''[[SubtInteract|Interactions]]:'''
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| ** [[SlrA]]-[[SinR]] {{PubMed|19788541}}
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| ** [[SlrR]]-[[SinR]] {{PubMed|20351052}}
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| ** [[SinR]]-[[ScoC]]
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| ** [[SinR]]-[[SinI]] {{PubMed|9799632}}
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| * '''[[Localization]]:'''
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| === Database entries ===
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| * '''Structure:'''
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| ** [http://www.rcsb.org/pdb/explore.do?structureId=3QQ6 3QQ6] (N-terminal domain, aa 1-69) {{PubMed|21708175}}
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| ** [http://www.rcsb.org/pdb/explore.do?structureId=2YAL 2YAL] (C-terminal domain, aa 74-111) {{PubMed|21708175}}
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| ** [http://www.rcsb.org/pdb/explore.do?structureId=1B0N 1B0N] (complex [[SinR]]-[[SinI]]) {{PubMed|9799632}}
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| * '''UniProt:''' [http://www.uniprot.org/uniprot/P06533 P06533]
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| * '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24610]
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| * '''E.C. number:'''
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| === Additional information===
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| =Expression and regulation=
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| * '''Operon:'''
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| ** ''[[sinI]]-[[sinR]]'' {{PubMed|3125149}}
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| ** ''[[sinR]]'' {{PubMed|3125149}}
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| * '''[[Sigma factor]]:'''
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| ** ''[[sinI]]'': [[SigA]] {{PubMed|3125149}}
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| ** ''[[sinR]]'': [[SigA]] {{PubMed|3125149}}
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| * '''Regulation:'''
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| ** ''[[sinI]]'': repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/11751836 PubMed]
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| ** ''[[sinI]]'': repressed during exponential growth ([[ScoC]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1906467,11751836 PubMed]
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| ** ''[[sinI]]'': repressed during logrithmic growth ([[AbrB]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/7635837,11751836 PubMed]
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| ** ''[[sinI]]'': repressed during vegetative growth ([[SinR]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1664536 PubMed]
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| * '''Regulatory mechanism:'''
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| ** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/11751836 PubMed]
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| ** [[ScoC]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1906467,11751836 PubMed]
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| ** [[AbrB]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/7635837,11751836 PubMed]
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| ** [[SinR]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1664536 PubMed]
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| * '''Additional information:'''
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| ** the mRNA is substantially stabilized upon depletion of [[Rny|RNase Y]] {{PubMed|21815947}}
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| =Biological materials =
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| * '''Mutant:''' TMB079 ''sinR::spec'', GP736 (tetR), available in [[Stülke]] lab
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| * '''Expression vector:'''
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| ** N-terminal Strep-tag, for [[SPINE]], expression in ''B. subtilis'', in [[pGP380]]: pGP1083 , available in [[Stülke]] lab
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| * '''lacZ fusion:'''
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| * '''GFP fusion:'''
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| * '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab
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| * '''FLAG-tag construct:''' GP960 (spc, based on [[pGP1331]]), available in the [[Stülke]] lab
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| * '''Antibody:'''
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| =Labs working on this gene/protein=
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| =Your additional remarks=
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| =References=
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| ==Reviews==
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| <pubmed>20395361 20541494 </pubmed>
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| ==Modelling of the [[SinI]]/[[SinR]] switch==
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| <pubmed> 21095906 </pubmed>
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| ==Original publications==
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| '''Additonal publications:''' {{PubMed|21326214,21708175}}
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| <big>''Lehnik-Habrink M, Schaffer M, Mäder U, Diethmaier C, Herzberg C, Stülke J'' </big>
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| <big>'''RNA processing in ''Bacillus subtilis'': identification of targets of the essential RNase Y.''' </big>
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| <big>Mol Microbiol. 2011 81(6): 1459-1473. </big>
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| [http://www.ncbi.nlm.nih.gov/pubmed/21815947 PubMed:21815947]
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| <pubmed>8955328,15661000,8878039,16923912,15104138,16430695,16430696,18047568,18430133,11751836,1906467,11751836,7635837,11751836, 19201793, 10547280, 15104138, 9799632 19788541 19898538 3125149 8932324 20351052 20923420 8422983 9685500 9158733 </pubmed>
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| [[Category:Protein-coding genes]]
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