Difference between revisions of "HelP"

From SubtiWiki
Jump to: navigation, search
 
(29 intermediate revisions by 7 users not shown)
Line 1: Line 1:
−
* '''Description:''' similar to transposon protein <br/><br/>
+
* '''Description:''' helicase processivity factor <br/><br/>
−
 
 
 
{| align="right" border="1" cellpadding="2"  
 
{| align="right" border="1" cellpadding="2"  
 
|-
 
|-
Line 6: Line 5:
 
|''ydcP''
 
|''ydcP''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ydcP ''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown
+
|style="background:#ABCDEF;" align="center"| '''Product''' || helicase processivity factor
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
+
|style="background:#ABCDEF;" align="center"|'''Function''' || conjugation and replication of ICEBs1
 +
|-
 +
|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=BSU04850 helP]
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 13 kDa, 5.309   
 
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 13 kDa, 5.309   
Line 18: Line 19:
 
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 378 bp, 126 aa  
 
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 378 bp, 126 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ydcO]]'', ''[[ydcQ]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ydcO]]'', ''[[conQ]]''
 
|-
 
|-
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/ydcP_nucleotide.txt    Gene sequence     (+200bp)  ]'''
+
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU04850 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU04850 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU04850 DNA_with_flanks]
−
|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/ydcP_protein.txt Protein sequence]'''
 
 
|-
 
|-
 
|colspan="2" | '''Genetic context''' <br/> [[Image:ydcP_context.gif]]
 
|colspan="2" | '''Genetic context''' <br/> [[Image:ydcP_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=ydcP_532922_533302_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ydcP_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU04850]]
 
|-
 
|-
 
|}
 
|}
  
 
__TOC__
 
__TOC__
 +
<br/><br/><br/><br/>
 +
<br/><br/><br/><br/>
 +
<br/><br/><br/><br/>
 +
<br/><br/>
 +
 +
= [[Categories]] containing this gene/protein =
 +
{{SubtiWiki category|[[mobile genetic elements]]}}
 +
 +
= This gene is a member of the following [[regulons]] =
  
−
<br/><br/>
 
  
 
=The gene=
 
=The gene=
Line 36: Line 46:
 
=== Basic information ===
 
=== Basic information ===
  
−
* '''Coordinates:'''
+
* '''Locus tag:''' BSU04850
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
  
 
=== Database entries ===
 
=== Database entries ===
 +
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU04850&redirect=T BSU04850]
  
 
* '''DBTBS entry:''' no entry
 
* '''DBTBS entry:''' no entry
Line 47: Line 58:
  
 
=== Additional information===
 
=== Additional information===
−
 
  
 
=The protein=
 
=The protein=
Line 54: Line 64:
  
 
* '''Catalyzed reaction/ biological activity:'''  
 
* '''Catalyzed reaction/ biological activity:'''  
−
 
+
** enables the host-encoded helicase [[PcrA]] to unwind the double-stranded ICEBs1 DNA {{PubMed|23326247}}
 
* '''Protein family:'''
 
* '''Protein family:'''
  
Line 63: Line 73:
 
* '''Kinetic information:'''
 
* '''Kinetic information:'''
  
−
* '''Domains:'''  
+
* '''[[Domains]]:'''  
  
 
* '''Modification:'''
 
* '''Modification:'''
  
−
* '''Cofactor(s):'''
+
* '''[[Cofactors]]:'''
  
 
* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
  
−
* '''Interactions:'''
+
* '''[[SubtInteract|Interactions]]:'''  
  
−
* '''Localization:'''
+
* '''[[Localization]]:'''
  
 
=== Database entries ===
 
=== Database entries ===
 +
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU04850&redirect=T BSU04850]
  
 
* '''Structure:'''
 
* '''Structure:'''
  
−
* '''Swiss prot entry:'''
+
* '''UniProt:''' [http://www.uniprot.org/uniprot/P96633 P96633]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU04850]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU04850]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
Line 91: Line 102:
 
* '''Operon:'''  
 
* '''Operon:'''  
  
−
* '''Sigma factor:'''  
+
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ydcP_532922_533302_1 helP] {{PubMed|22383849}}
 +
 
 +
* '''[[Sigma factor]]:'''  
  
 
* '''Regulation:'''  
 
* '''Regulation:'''  
Line 97: Line 110:
 
* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
  
−
* '''Additional information:'''  
+
* '''Additional information:'''
 +
** A [[ncRNA]] is predicted between ''[[ydcO]]'' and ''[[helP]]'' {{PubMed|20525796}}
  
 
=Biological materials =
 
=Biological materials =
Line 118: Line 132:
  
 
=References=
 
=References=
−
 
+
<pubmed>20525796 23326247 </pubmed>
−
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]
+
[[Category:Protein-coding genes]]

Latest revision as of 16:07, 28 May 2015

  • Description: helicase processivity factor

Gene name ydcP
Synonyms ydcP
Essential no
Product helicase processivity factor
Function conjugation and replication of ICEBs1
Gene expression levels in SubtiExpress: helP
MW, pI 13 kDa, 5.309
Gene length, protein length 378 bp, 126 aa
Immediate neighbours ydcO, conQ
Sequences Protein DNA DNA_with_flanks
Genetic context
YdcP context.gif
This image was kindly provided by SubtiList
Expression at a glance   PubMed
YdcP expression.png















Categories containing this gene/protein

mobile genetic elements

This gene is a member of the following regulons

The gene

Basic information

  • Locus tag: BSU04850

Phenotypes of a mutant

Database entries

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

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity:
    • enables the host-encoded helicase PcrA to unwind the double-stranded ICEBs1 DNA PubMed
  • Protein family:
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Modification:
  • Effectors of protein activity:

Database entries

  • Structure:
  • KEGG entry: [2]
  • E.C. number:

Additional information

Expression and regulation

  • Operon:
  • Regulation:
  • Regulatory mechanism:

Biological materials

  • Mutant:
  • Expression vector:
  • lacZ fusion:
  • GFP fusion:
  • two-hybrid system:
  • Antibody:

Labs working on this gene/protein

Your additional remarks

References

Jacob Thomas, Catherine A Lee, Alan D Grossman
A conserved helicase processivity factor is needed for conjugation and replication of an integrative and conjugative element.
PLoS Genet: 2013, 9(1);e1003198
[PubMed:23326247] [WorldCat.org] [DOI] (I p)

Irnov Irnov, Cynthia M Sharma, Jörg Vogel, Wade C Winkler
Identification of regulatory RNAs in Bacillus subtilis.
Nucleic Acids Res: 2010, 38(19);6637-51
[PubMed:20525796] [WorldCat.org] [DOI] (I p)

Retrieved from "https://subtiwiki.uni-goettingen.de/wiki//index.php?title=HelP&oldid=207999"