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* '''Description:''' amino acid racemase, production of D-amino acids, control of [[biofilm formation]] <br/><br/>
* '''Description:''' 4.5 S 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'''
|''racX''
|''scr''
|-
|-
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
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|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
|-
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || amino acid racemase
|style="background:#ABCDEF;" align="center"| '''Product''' || small cytoplasmic RNA (scRNA, 4.5S RNA),
 
signal recognition particle-like (SRP) component
|-
|-
|style="background:#ABCDEF;" align="center"|'''Function''' || control of [[biofilm formation]]
|style="background:#ABCDEF;" align="center"|'''Function''' || presecretory protein translocation
|-
|-
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 25 kDa, 5.396 
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yaaJ]]'', ''[[dnaX]]''
|-
|-
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 681 bp, 227 aa
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/scr_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/scr_protein.txt Protein sequence]'''
|-
|-
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yveF]]'', ''[[pbpE]]''
|colspan="2" | '''Genetic context''' <br/> [[Image:scr_context.gif]]
|-
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15448&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
|-
|colspan="2" | '''Genetic context''' <br/> [[Image:racX_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>
|-
|-
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__TOC__
__TOC__


<br/><br/>
<br/><br/><br/><br/><br/><br/>


= [[Categories]] containing this gene/protein =
= [[Categories]] containing this gene/protein =
{{SubtiWiki category|[[biofilm formation]]}},
{{SubtiWiki category|[[protein secretion]]}},
{{SubtiWiki category|[[cell envelope stress proteins (controlled by SigM, W, X, Y)]]}}
{{SubtiWiki category|[[ncRNA]]}}


= This gene is a member of the following [[regulons]] =
= This gene is a member of the following [[regulons]] =
Line 42: Line 41:
=== Basic information ===
=== Basic information ===


* '''Locus tag:''' BSU34430
* '''Locus tag:'''


===Phenotypes of a mutant ===
===Phenotypes of a mutant ===
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=== Database entries ===
=== Database entries ===


* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/pbpE-racX.html]
* '''DBTBS entry:''' no entry


* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10391]
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG00095]
 
* '''Structure:'''


=== Additional information===
=== Additional information===
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=The RNA=
=The protein=


=== Basic information/ Evolution ===
=== Basic information/ Evolution ===
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* '''Catalyzed reaction/ biological activity:'''  
* '''Catalyzed reaction/ biological activity:'''  


* '''Protein family:''' aspartate/glutamate racemases family (according to Swiss-Prot)
=== Extended information on the RNA===
 
* '''Paralogous protein(s):'''


=== Extended information on the protein ===
* '''Kinetic information'''


* '''Kinetic information:'''
* '''Interactions:''' [[Scr]]-[[Ffh]]


* '''Domains:'''
* '''Localization'''
 
* '''Modification:'''
 
* '''Cofactor(s):'''
 
* '''Effectors of protein activity:'''
 
* '''Interactions:'''
 
* '''Localization:'''


=== Database entries ===
=== Database entries ===


* '''Structure:'''
* '''Structure''':  
 
* '''UniProt:''' [http://www.uniprot.org/uniprot/P32960 P32960]
 
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU34430]
 
* '''E.C. number:'''


=== Additional information===
=== Additional information===


=Expression and regulation=
=Expression and regulation=
* '''Operon:''' ''[[pbpE]]-[[racX]]'' {{PubMed|8491712}}


* '''[[Sigma factor]]:''' [[SigW]] {{PubMed|8491712,12207695}}
* '''Operon:''' ''[[yaaJ]]-[[scr]],  [[scr]]''
 
* '''Sigma factor:''' [[SigA]] (both promoters)


* '''Regulation:'''  
* '''Regulation:'''  
** repressed during logrithmic growth ([[AbrB]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/7592498 PubMed]
** induced by cell wall stress ([[SigW]]) {{PubMed|8491712,12207695}}


* '''Regulatory mechanism:'''  
* '''Regulatory mechanism:'''  
** [[AbrB]]:  transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/7592498 PubMed]


* '''Additional information:'''
* '''Additional information:''' transcribed as 354 nt precursor, cleaved at the 5' end by [[rnc| RNase III]] and at the 3' site by [[rnjA| RNase J1]] to yield a 275 nt molecule, final trimming to 271 nt sc RNA by [[rph| RNase PH]] [http://www.ncbi.nlm.nih.gov/sites/entrez/17576666 PubMed]


=Biological materials =
=Biological materials =
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* '''lacZ fusion:'''
* '''lacZ fusion:'''


* '''GFP fusion:'''
=Labs working on this gene/protein=
 
* '''two-hybrid system:'''
 
* '''Antibody:'''


=Labs working on this gene/protein=
[[David Bechhofer]], Mount Sinai School, New York, USA [http://www.mountsinai.org/Research/Centers%20Laboratories%20and%20Programs/Bechhofer%20Laboratory?citype=Physician&ciid=Bechhofer%20David%20H%201255565 Homepage]


=Your additional remarks=
=Your additional remarks=
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=References=
=References=


<pubmed>8491712,19063962,9987136, 20431016,7592498, </pubmed>
<pubmed>9346318,2468993,17576666, </pubmed>


[[Category:Protein-coding genes]]
[[Category:small RNA]]

Revision as of 13:48, 8 December 2010

  • Description: 4.5 S RNA

Gene name scr
Synonyms
Essential no
Product small cytoplasmic RNA (scRNA, 4.5S RNA),

signal recognition particle-like (SRP) component

Function presecretory protein translocation
Immediate neighbours yaaJ, dnaX
Gene sequence (+200bp) Protein sequence
Genetic context
This image was kindly provided by SubtiList







Categories containing this gene/protein

protein secretion, ncRNA

This gene is a member of the following regulons

The gene

Basic information

  • Locus tag:

Phenotypes of a mutant

Database entries

  • DBTBS entry: no entry
  • SubtiList entry: [1]
  • Structure:

Additional information

The RNA

Basic information/ Evolution

  • Catalyzed reaction/ biological activity:

Extended information on the RNA

  • Kinetic information
  • Localization

Database entries

  • Structure:

Additional information

Expression and regulation

  • Sigma factor: SigA (both promoters)
  • Regulation:
  • Regulatory mechanism:
  • Additional information: transcribed as 354 nt precursor, cleaved at the 5' end by RNase III and at the 3' site by RNase J1 to yield a 275 nt molecule, final trimming to 271 nt sc RNA by RNase PH PubMed

Biological materials

  • Mutant:
  • Expression vector:
  • lacZ fusion:

Labs working on this gene/protein

David Bechhofer, Mount Sinai School, New York, USA Homepage

Your additional remarks

References

<pubmed>9346318,2468993,17576666, </pubmed>

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