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* '''Description:''' transcriptional regulator ([[transcription factors of the Xre family|Xre family]]) of post-exponential-phase responses genes <br/><br/>
{{#bank: SinR}}


{| align="right" border="1" cellpadding="2"
|-
|style="background:#ABCDEF;" align="center"|'''Gene name'''
|''sinR''
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''sin, flaD ''
|-
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || transcriptional regulator ([[transcription factors of the Xre family|Xre family]])
of post-exponential-phase responses genes
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || control of [[biofilm formation]]
|-
|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=BSU24610 sinR]
|-
|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=SinR SinR]
|-
|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=sinR sinR]'''
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 12 kDa, 7.177 
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 333 bp, 111 aa
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[sinI]]'', ''[[tasA]]''
|-
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24610 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24610 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24610 DNA_with_flanks]
|-
|colspan="2" | '''Genetic context''' <br/> [[Image:sinR_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=sinR_2552653_2552988_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:sinR_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24610]]
|-
|}
__TOC__
<br/><br/><br/><br/>
<br/><br/><br/><br/>
<br/><br/><br/><br/>
<br/><br/>
= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[transcription factors and their control]]}},
{{SubtiWiki category|[[transition state regulators]]}},
{{SubtiWiki category|[[biofilm formation]]}}
= This gene is a member of the following [[regulons]] =
{{SubtiWiki regulon|[[AbrB regulon]]}},
{{SubtiWiki regulon|[[ScoC regulon]]}},
{{SubtiWiki regulon|[[Spo0A regulon]]}}
=The [[SinR regulon]]=
=The gene=
=== Basic information ===
* '''Locus tag:''' BSU24610
===Phenotypes of a mutant ===
* the mutation suppresses the galactose toxicity to a'' [[galE]]'' mutant  {{PubMed|22893383}}
=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24610&redirect=T BSU24610]
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sinIR.html]
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10754]
=== Additional information===
=The protein=
=== Basic information/ Evolution ===
* '''Catalyzed reaction/ biological activity:'''
** transcription regulator of biofilm genes, acts as a true repressor of the ''[[tapA]]-[[sipW]]-[[tasA]]'' operon and as an anti-activator (prevents binding of the activator protein [[RemA]]) of the ''[[epsA]]-[[epsB]]-[[epsC]]-[[epsD]]-[[epsE]]-[[epsF]]-[[epsG]]-[[epsH]]-[[epsI]]-[[epsJ]]-[[epsK]]-[[epsL]]-[[epsM]]-[[epsN]]-[[epsO]]'' operon {{PubMed|23646920}}
** acts as co-repressor for [[SlrR]] {{PubMed|20351052}}
* '''Protein family:'''[[transcription factors of the Xre family|Xre family]]
* '''Paralogous protein(s):''' [[SlrR]]
=== Extended information on the protein ===
* '''Kinetic information:'''
* '''Domains:'''
** DNA-binding N-terminal domain (aa 1-69) {{PubMed|21708175}}
** [[SinI]]-binding C-terminal domain (aa 74-111) {{PubMed|21708175}}
* '''Modification:'''
* '''Cofactor(s):'''
* '''Effectors of protein activity:'''
** [[SinI]] and [[SlrA]] are antagonists to [[SinR]]  {{PubMed|19788541}}
** [[SlrR]] is also antagonist of [[SinR]] {{PubMed|20351052}}
* '''[[SubtInteract|Interactions]]:'''
** [[SlrA]]-[[SinR]] {{PubMed|19788541}}, K(D) 10.6 nM  {{PubMed|23430750}}
** [[SlrR]]-[[SinR]] {{PubMed|20351052}}, K(D) 47.5 nM  {{PubMed|23430750}}, [[Veg]] may inhibit this interaction {{PubMed|23378512}}
** [[SinR]]-[[SinI]] {{PubMed|9799632}}, K(D) 1.8 nM  {{PubMed|23430750}}
** [[SinR]]-[[ScoC]]
* '''[[Localization]]:'''
=== Database entries ===
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24610&redirect=T BSU24610]
* '''Structure:'''
** [http://www.rcsb.org/pdb/explore.do?structureId=3QQ6 3QQ6] (N-terminal domain, aa 1-69) {{PubMed|21708175}}
** [http://www.rcsb.org/pdb/explore.do?structureId=2YAL 2YAL] (C-terminal domain, aa 74-111) {{PubMed|21708175}}
** [http://www.rcsb.org/pdb/explore.do?structureId=1B0N 1B0N] (complex [[SinR]]-[[SinI]]) {{PubMed|9799632}}
* '''UniProt:''' [http://www.uniprot.org/uniprot/P06533 P06533]
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24610]
* '''E.C. number:'''
=== Additional information===
=Expression and regulation=
* '''Operon:'''
** ''[[sinI]]-[[sinR]]'' {{PubMed|3125149}}
** ''[[sinR]]'' {{PubMed|3125149}}
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=sinR_2552653_2552988_1 sinR] {{PubMed|22383849}}
* '''[[Sigma factor]]:'''
** ''[[sinI]]'': [[SigA]] {{PubMed|3125149}}
** ''[[sinR]]'': [[SigA]] {{PubMed|3125149}}
* '''Regulation:'''
** ''[[sinI]]'': repressed under conditions that trigger sporulation ([[Spo0A]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/11751836 PubMed]
** ''[[sinI]]'': repressed during exponential growth ([[ScoC]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1906467,11751836 PubMed]
** ''[[sinI]]'': repressed during logrithmic growth ([[AbrB]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/7635837,11751836 PubMed]
** ''[[sinI]]'': repressed during vegetative growth ([[SinR]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/1664536 PubMed]
* '''Regulatory mechanism:'''
** [[Spo0A]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/11751836 PubMed]
** [[ScoC]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1906467,11751836 PubMed]
** [[AbrB]]:  transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/7635837,11751836 PubMed]
** [[SinR]]:  transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/1664536 PubMed]
* '''Additional information:'''
** the mRNA is substantially stabilized upon depletion of [[Rny|RNase Y]] (the half-life of the mRNA increases from 3.5 to 13 min) {{PubMed|21815947}}
** number of protein molecules per cell (minimal medium with glucose and ammonium): 699 {{PubMed|24696501}}
** number of protein molecules per cell (complex medium with amino acids, without glucose): 425 {{PubMed|24696501}}
=Biological materials =
* '''Mutant:'''
** GP923 (''sinR::spec'') {{PubMed|21856853}}, available in [[Jörg Stülke]]'s lab
** GP736 (''sinR::tetR'') {{PubMed|24493247}}, available in [[Jörg Stülke]]'s lab
** 1S97 (''sinR''::''phleo''), {{PubMed|8422983}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1S97&Search=1S97 BGSC]
** GP1672 (''[[sinR]]-[[tasA]]''::''cat'') {{PubMed|24493247}}, available in [[Jörg Stülke]]'s lab
** GP1663 (''[[yqhG]]-[[sinI]]-[[sinR]]-[[tasA]]''), available in [[Jörg Stülke]]'s lab
* '''Expression vector:'''
** N-terminal Strep-tag, for [[SPINE]], expression in ''B. subtilis'', in [[pGP380]]: pGP1083 , available in [[Jörg Stülke]]'s lab
       
* '''lacZ fusion:'''
** pGP1930 (aphA3) based on [[pAC7]], available in [[Jörg Stülke]]'s lab
* '''GFP fusion:'''
* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab
* '''FLAG-tag construct:''' GP960 (spc, based on [[pGP1331]]), available in [[Jörg Stülke]]'s lab
* '''Antibody:'''
=Labs working on this gene/protein=
=Your additional remarks=
=References=
==Reviews==
<pubmed>20395361 20541494 23353768 24988880 </pubmed>
==Modelling of the [[SinI]]/[[SinR]] switch==
<pubmed> 21095906 </pubmed>
==Original publications==
<pubmed> 22893383 23378512 23430750 23475644 21856853 21815947 22329926,21326214,21708175 8955328, 15661000, 8878039, 24317403 16923912,15104138, 16430695,16430696,18047568, 18430133,11751836,1906467, 11751836, 7635837, 11751836, 19201793, 10547280, 15104138, 9799632 19788541 19898538 3125149 8932324 20351052 20923420 8422983 9685500 9158733 23646920 23660663 24256735 24347549 25433524 </pubmed>
[[Category:Protein-coding genes]]

Latest revision as of 17:16, 19 August 2015

SinR

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