Difference between revisions of "Sandbox"
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− | * '''Description:''' | + | * '''Description:''' repair, recombination <br/><br/> |
{| align="right" border="1" cellpadding="2" | {| align="right" border="1" cellpadding="2" | ||
|- | |- | ||
|style="background:#ABCDEF;" align="center"|'''Gene name''' | |style="background:#ABCDEF;" align="center"|'''Gene name''' | ||
− | |'' | + | |''recR'' |
|- | |- | ||
− | |style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' '' | + | |style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''recM '' |
|- | |- | ||
|style="background:#ABCDEF;" align="center"| '''Essential''' || no | |style="background:#ABCDEF;" align="center"| '''Essential''' || no | ||
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|style="background:#ABCDEF;" align="center"| '''Product''' || unknown | |style="background:#ABCDEF;" align="center"| '''Product''' || unknown | ||
|- | |- | ||
− | |style="background:#ABCDEF;" align="center"|'''Function''' || | + | |style="background:#ABCDEF;" align="center"|'''Function''' || [[DNA repair/ recombination]] |
|- | |- | ||
− | |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= | + | |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=BSU00210 recR] |
|- | |- | ||
− | |style="background:# | + | |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=RecR RecR] |
|- | |- | ||
− | |style="background:#ABCDEF;" align="center"| ''' | + | |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 21 kDa, 5.301 |
|- | |- | ||
− | |style="background:#ABCDEF;" align="center"|''' | + | |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 594 bp, 198 aa |
|- | |- | ||
− | |style="background:# | + | |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yaaK]]'', ''[[yaaL]]'' |
|- | |- | ||
− | |colspan="2" | '''Genetic context''' <br/> [[Image: | + | |style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU00210 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU00210 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU00210 DNA_with_flanks] |
+ | |- | ||
+ | |colspan="2" | '''Genetic context''' <br/> [[Image:recR_context.gif]] | ||
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div> | <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= | + | |colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=recR_28867_29463_1 Expression at a glance]'''   {{PubMed|22383849}}<br/>[[Image:recR_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU00210]] |
|- | |- | ||
|} | |} | ||
Line 35: | Line 37: | ||
<br/><br/><br/><br/> | <br/><br/><br/><br/> | ||
<br/><br/><br/><br/> | <br/><br/><br/><br/> | ||
− | |||
− | |||
− | |||
− | |||
<br/><br/> | <br/><br/> | ||
= [[Categories]] containing this gene/protein = | = [[Categories]] containing this gene/protein = | ||
− | {{SubtiWiki category|[[ | + | {{SubtiWiki category|[[DNA repair/ recombination]]}} |
= This gene is a member of the following [[regulons]] = | = This gene is a member of the following [[regulons]] = | ||
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=== Basic information === | === Basic information === | ||
− | * '''Locus tag:''' | + | * '''Locus tag:''' BSU00210 |
===Phenotypes of a mutant === | ===Phenotypes of a mutant === | ||
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* '''DBTBS entry:''' no entry | * '''DBTBS entry:''' no entry | ||
− | * '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+ | + | * '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10085] |
=== Additional information=== | === Additional information=== | ||
− | + | ||
+ | |||
+ | |||
=The protein= | =The protein= | ||
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* '''Catalyzed reaction/ biological activity:''' | * '''Catalyzed reaction/ biological activity:''' | ||
− | * '''Protein family:''' | + | * '''Protein family:''' recR family (according to Swiss-Prot) |
* '''Paralogous protein(s):''' | * '''Paralogous protein(s):''' | ||
− | |||
− | |||
=== Extended information on the protein === | === Extended information on the protein === | ||
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* '''[[SubtInteract|Interactions]]:''' | * '''[[SubtInteract|Interactions]]:''' | ||
+ | ** [[RecR]]-[[RecO]], [[RecR]]:[[RecO]] molecular ratio of 2:1 (as judged from other bacteria such as ''E. coli'' and ''Deinococcus radiodurans'') {{PubMed|17581636}} | ||
− | * '''[[Localization]]:''' | + | * '''[[Localization]]:''' |
+ | ** cytoplasm (homogeneous) [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed] | ||
=== Database entries === | === Database entries === | ||
* '''Structure:''' | * '''Structure:''' | ||
+ | ** [http://www.rcsb.org/pdb/explore/explore.do?structureId=2V1C 2V1C] (the [[RecR]]-[[RecO]] complex from ''Deinococcus radiodurans'', [[RecR]]: 52% identity, 78% similarity, [[RecO]]: 30%/ 58%) {{PubMed|17581636}} | ||
− | * '''UniProt:''' [http://www.uniprot.org/uniprot/ | + | * '''UniProt:''' [http://www.uniprot.org/uniprot/P24277 P24277] |
− | * '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu: | + | * '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU00210] |
* '''E.C. number:''' | * '''E.C. number:''' | ||
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* '''Operon:''' | * '''Operon:''' | ||
− | * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id= | + | * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=recR_28867_29463_1 recR] {{PubMed|22383849}} |
− | * '''Sigma factor:''' | + | * '''[[Sigma factor]]:''' |
* '''Regulation:''' | * '''Regulation:''' | ||
Line 137: | Line 138: | ||
=References= | =References= | ||
− | + | == Reviews == | |
− | <pubmed>12884008, | + | <pubmed> 22933559 </pubmed> |
+ | == Original publications == | ||
+ | <pubmed>12884008,17581636, 16479537 </pubmed> | ||
[[Category:Protein-coding genes]] | [[Category:Protein-coding genes]] |
Revision as of 14:54, 11 November 2013
- Description: repair, recombination
Gene name | recR |
Synonyms | recM |
Essential | no |
Product | unknown |
Function | DNA repair/ recombination |
Gene expression levels in SubtiExpress: recR | |
Interactions involving this protein in SubtInteract: RecR | |
MW, pI | 21 kDa, 5.301 |
Gene length, protein length | 594 bp, 198 aa |
Immediate neighbours | yaaK, yaaL |
Sequences | Protein DNA DNA_with_flanks |
Genetic context This image was kindly provided by SubtiList
| |
Expression at a glance PubMed |
Contents
Categories containing this gene/protein
This gene is a member of the following regulons
The gene
Basic information
- Locus tag: BSU00210
Phenotypes of a mutant
Database entries
- DBTBS entry: no entry
- SubtiList entry: [1]
Additional information
The protein
Basic information/ Evolution
- Catalyzed reaction/ biological activity:
- Protein family: recR family (according to Swiss-Prot)
- Paralogous protein(s):
Extended information on the protein
- Kinetic information:
- Domains:
- Modification:
- Cofactor(s):
- Effectors of protein activity:
- Localization:
- cytoplasm (homogeneous) PubMed
Database entries
- Structure:
- UniProt: P24277
- KEGG entry: [2]
- E.C. number:
Additional information
Expression and regulation
- Operon:
- Regulation:
- Regulatory mechanism:
- Additional information: the mRNA is very stable (half-life > 15 min) PubMed
Biological materials
- Mutant:
- Expression vector:
- lacZ fusion:
- GFP fusion:
- two-hybrid system:
- Antibody:
Labs working on this gene/protein
Your additional remarks
References
Reviews
Original publications