Difference between revisions of "FsrA"

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(New page: * '''Description:''' write here <br/><br/> {| align="right" border="1" cellpadding="2" |- |style="background:#ABCDEF;" align="center"|'''Gene name''' |''genE'' |- |style="background:#ABC...)
 
 
(43 intermediate revisions by 7 users not shown)
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−
* '''Description:''' write here <br/><br/>
+
* '''Description:''' regulatory RNA<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'''
−
|''genE''
+
|''fsrA''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Essential''' || write here
+
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || write here
+
|style="background:#ABCDEF;" align="center"| '''Product''' || sRNA FsrA
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || write here
+
|style="background:#ABCDEF;" align="center"|'''Function''' || inhibition of ''[[sdhC]]'' translation
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || xx,x kDa, y.yy
+
|style="background:#ABCDEF;" align="center"| '''Gene length''' || aaa bp
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || aaa bp, bbb amino acids
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ykuI]]'', ''[[ykuJ]]''
−
|-
 
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[genA]]'', ''[[genB]]''
 
 
|-
 
|-
 
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/genE_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
 
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/genE_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/genE_protein.txt Protein sequence]'''
 
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:genE_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:FsrA_context.jpg]]
 
|-
 
|-
 
|}
 
|}
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<br/><br/>
 
<br/><br/>
 +
 +
= [[Categories]] containing this gene/protein =
 +
{{SubtiWiki category|[[carbon core metabolism]]}},
 +
{{SubtiWiki category|[[acquisition of iron]]}},
 +
{{SubtiWiki category|[[ncRNA]]}}
 +
 +
= This gene is a member of the following [[regulons]] =
 +
{{SubtiWiki regulon|[[Fur regulon]]}}
 +
=The [[FsrA regulon]]''=
  
 
=The gene=
 
=The gene=
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=== Basic information ===
 
=== Basic information ===
  
−
* '''Coordinates (CDS):'''
+
* '''Locus tag:'''
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
 +
* transcription profile of a ''[[fsrA]]'' mutant strain: [http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE27416 GEO] {{PubMed|22389480}}
  
 
=== Database entries ===
 
=== Database entries ===
 +
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=?&redirect=T ?]
 +
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=?&redirect=T ?]
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/rocG.html]
+
* '''DBTBS entry:''' no entry
  
−
* '''SubtiList entry:'''
+
* '''SubtiList entry:''' no entry
  
−
=== Additional information===
+
* '''GEO entry:''' [http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE27416 GEO] {{PubMed|22389480}}
  
 +
* '''Structure:'''
  
−
=The protein=
+
=== Additional information===
  
−
=== Basic information/ Evolution ===
+
* '''Swiss prot entry:'''
  
−
* '''Catalyzed reaction/ biological activity:'''  
+
* '''KEGG entry:''' no entry
 +
 
 +
* '''E.C. number:'''
  
−
* '''Protein family:'''
+
=== Additional information===
  
−
* '''Paralogous protein(s):'''
 
  
−
=== Extended information on the protein ===
 
  
−
* '''Kinetic information:'''
+
=The RNA=
  
−
* '''Domains:'''
+
=== Basic information/ Evolution ===
  
−
* '''Modification:'''
+
* '''Catalyzed reaction/ biological activity:''' hybridizes to ''[[sdhC]], [[citB]], [[lutB]], [[gltA]]-[[gltB]]'', and ''[[leuC]]-[[leuD]]'' mRNAs and inhibits their translation. {{PubMed|18697947,22389480}}
  
−
* '''Cofactor(s):'''
+
=== Extended information on the RNA===
  
−
* '''Effectors of protein activity:'''
+
* '''Kinetic information'''
  
−
* '''Interactions:'''
+
* '''[[SubtInteract|Interactions]]:'''
 +
** Binds ''[[sdhC]], [[citB]], [[lutB]], [[gltA]]-[[gltB]]'', and ''[[leuC]]-[[leuD]]'' mRNAs {{PubMed|18697947,22389480}}
  
−
* '''Localization:'''
+
* '''[[Localization]]'''
  
 
=== Database entries ===
 
=== Database entries ===
 +
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=?&redirect=T ?]
 +
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=?&redirect=T ?]
  
−
* '''Structure:'''
+
* '''Structure''':  
−
 
 
−
* '''Swiss prot entry:'''
 
−
 
 
−
* '''KEGG entry:'''
 
−
 
 
−
* '''E.C. number:'''
 
  
 
=== Additional information===
 
=== Additional information===
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* '''Operon:'''  
 
* '''Operon:'''  
  
−
* '''Sigma factor:'''  
+
* '''[[Sigma factor]]:'''  
  
−
* '''Regulation:'''  
+
* '''Regulation:''' induced by iron starvation ([[Fur]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/18697947 PubMed]
  
−
* '''Regulatory mechanism:'''  
+
* '''Regulatory mechanism:''' [[Fur]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/18697947 PubMed]
  
−
* '''Additional information:'''  
+
* '''Additional information:'''
  
 
=Biological materials =
 
=Biological materials =
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* '''lacZ fusion:'''
 
* '''lacZ fusion:'''
  
−
* '''GFP fusion:'''
+
=Labs working on this gene/RNA=
−
 
 
−
* '''two-hybrid system:'''
 
−
 
 
−
* '''Antibody:'''
 
  
−
=Labs working on this gene/protein=
+
[[John Helmann]], Cornell University, USA [http://www.micro.cornell.edu/research/labs/helmann-lab/index.cfm Homepage]
  
 
=Your additional remarks=
 
=Your additional remarks=
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=References=
 
=References=
  
−
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]
+
<pubmed>22427629,18697947,22389480</pubmed>
 +
 
 +
[[Category:small RNA]]

Latest revision as of 15:23, 2 April 2014

  • Description: regulatory RNA

Gene name fsrA
Synonyms
Essential no
Product sRNA FsrA
Function inhibition of sdhC translation
Gene length aaa bp
Immediate neighbours ykuI, ykuJ
Gene sequence (+200bp)
Genetic context
FsrA context.jpg



Categories containing this gene/protein

carbon core metabolism, acquisition of iron, ncRNA

This gene is a member of the following regulons

Fur regulon

The FsrA regulon

The gene

Basic information

  • Locus tag:

Phenotypes of a mutant

Database entries

  • BsubCyc: ?
  • BsubCyc: ?
  • DBTBS entry: no entry
  • SubtiList entry: no entry
  • Structure:

Additional information

  • Swiss prot entry:
  • KEGG entry: no entry
  • E.C. number:

Additional information

The RNA

Basic information/ Evolution

Extended information on the RNA

  • Kinetic information

Database entries

  • BsubCyc: ?
  • BsubCyc: ?
  • Structure:

Additional information

Expression and regulation

  • Operon:
  • Regulation: induced by iron starvation (Fur) PubMed
  • Regulatory mechanism: Fur: transcription repression PubMed
  • Additional information:

Biological materials

  • Mutant:
  • Expression vector:
  • lacZ fusion:

Labs working on this gene/RNA

John Helmann, Cornell University, USA Homepage

Your additional remarks

References

Gregory T Smaldone, Haike Antelmann, Ahmed Gaballa, John D Helmann
The FsrA sRNA and FbpB protein mediate the iron-dependent induction of the Bacillus subtilis lutABC iron-sulfur-containing oxidases.
J Bacteriol: 2012, 194(10);2586-93
[PubMed:22427629] [WorldCat.org] [DOI] (I p)

Gregory T Smaldone, Olga Revelles, Ahmed Gaballa, Uwe Sauer, Haike Antelmann, John D Helmann
A global investigation of the Bacillus subtilis iron-sparing response identifies major changes in metabolism.
J Bacteriol: 2012, 194(10);2594-605
[PubMed:22389480] [WorldCat.org] [DOI] (I p)

Ahmed Gaballa, Haike Antelmann, Claudio Aguilar, Sukhjit K Khakh, Kyung-Bok Song, Gregory T Smaldone, John D Helmann
The Bacillus subtilis iron-sparing response is mediated by a Fur-regulated small RNA and three small, basic proteins.
Proc Natl Acad Sci U S A: 2008, 105(33);11927-32
[PubMed:18697947] [WorldCat.org] [DOI] (I p)

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