Difference between revisions of "Sfp/2"

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* '''Description:''' 4'-phosphopantetheine transferases transferase, inactive pseudogene in strain 168<br/><br/>
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* '''Description:''' write here <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'''
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|''sfp/2''
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|''sfp/1''
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
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|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''sfp''
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Essential''' || write here
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|style="background:#ABCDEF;" align="center"| '''Essential''' || no
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Product''' || write here
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|style="background:#ABCDEF;" align="center"| '''Product''' || 4'-phosphopantetheine transferase
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"|'''Function''' || write here
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|style="background:#ABCDEF;" align="center"|'''Function''' || phosphopantetheinylates a serine residue in each<br/> of the seven peptidyl carrier protein domains of the <br/>first three subunits of surfactin synthetase ([[SrfAA]]-[[SrfAB]]-[[SrfAC]]) and [[AcpK]]
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''MW, pI''' ||   
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|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 19 kDa, 8.38  
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' ||  
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|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 495 bp, 165 aa
 
|-
 
|-
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' ||  
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ycxD]]'', ''[[sfp/1]]''
 
|-
 
|-
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/genE_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/sfp_nucleotide.txt    Gene sequence      (+200bp)  ]'''  
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/genE_protein.txt Protein sequence]'''
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|style="background:#FAF8CC;" align="center"|'''[http://subtiwiki.uni-goettingen.de/sfp_protein.txt Protein sequence]'''
 
|-
 
|-
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|colspan="2" | '''Genetic context''' <br/> [[Image:sfp/2_context.gif]]
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|colspan="2" style="background:#FAF8CC;color:#FF0000" align="center" | '''Caution: The sequence for this gene in SubtiList contains errors
 +
|-
 +
|colspan="2" | '''Genetic context''' <br/> [[Image:sfp_context.gif]]
 +
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 
|-
 
|-
 
|}
 
|}
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__TOC__
 
__TOC__
  
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<br/><br/>
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<br/><br/><br/><br/><br/>
  
 
= [[Categories]] containing this gene/protein =
 
= [[Categories]] containing this gene/protein =
 +
{{SubtiWiki category|[[miscellaneous metabolic pathways]]}},
 +
{{SubtiWiki category|[[biofilm formation]]}},
 +
{{SubtiWiki category|[[biosynthesis of antibacterial compounds]]}},
 
{{SubtiWiki category|[[pseudogenes]]}}
 
{{SubtiWiki category|[[pseudogenes]]}}
  
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=== Basic information ===
 
=== Basic information ===
  
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* '''Locus tag:'''
+
* '''Locus tag:''' BSU03570
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
 +
 +
No swarming motility on B medium. [http://www.ncbi.nlm.nih.gov/sites/entrez/19202088 PubMed]
  
 
=== Database entries ===
 
=== Database entries ===
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* '''DBTBS entry:''' no entry
 
* '''DBTBS entry:''' no entry
  
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* '''SubtiList entry:''' no entry
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* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10176]
  
 
=== Additional information===
 
=== Additional information===
  
 +
* This gene is a pseudogene in ''B. subtilis'' 168 due to a mutation that resulted in an internal frameshift. The second part of the pseudogene is ''[[sfp/2]]''.
 +
* Correction of ''[[sfp]]'', ''[[epsC]]'','' [[swrAA]]'', and ''[[degQ]]'' as well as introduction of ''rapP'' from a plasmid present in NCIB3610 results in biofilm formation in ''B. subtilis'' 168 {{PubMed|21278284}}
  
  
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=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
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* '''Catalyzed reaction/ biological activity:'''  
+
* '''Catalyzed reaction/ biological activity:''' CoA + apo-[peptidyl-carrier protein] = adenosine 3',5'-bisphosphate + holo-[peptidyl-carrier protein] (according to Swiss-Prot)
  
−
* '''Protein family:'''
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* '''Protein family:''' Gsp/sfp/hetI/acpT family (according to Swiss-Prot)
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
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=== Database entries ===
 
=== Database entries ===
  
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* '''Structure:'''
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* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1QR0 1QR0] (complex with CoA)
  
 
* '''Swiss prot entry:'''
 
* '''Swiss prot entry:'''
  
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* '''KEGG entry:'''
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* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU03570]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
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* '''Operon:'''  
 
* '''Operon:'''  
  
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* '''Sigma factor:'''  
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* '''[[Sigma factor]]:'''  
  
 
* '''Regulation:'''  
 
* '''Regulation:'''  
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* '''Expression vector:'''
 
* '''Expression vector:'''
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+
       
 
* '''lacZ fusion:'''
 
* '''lacZ fusion:'''
  
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=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
 +
 +
[[Mohamed Marahiel]], Marburg University, Germany [http://www.uni-marburg.de/fb15/fachgebiete/bio/marahiel?language_sync=1 homepage]
  
 
=Your additional remarks=
 
=Your additional remarks=
  
 
=References=
 
=References=
−
 
+
==Reviews==
−
[http://www.ncbi.nlm.nih.gov/sites/entrez?db=pubmed&cmd=DetailsSearch&term=subtilis+sfp/2&log$=activity search PubMed]
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<pubmed>20735481 </pubmed>
 +
==Original publications==
 +
<pubmed>15955059,19202088,2848009,11489886,15065855,10581256,15066026,11867633,19202088, 19749039 20094656 9484229 20148996 21278284 21466506 </pubmed>
  
 
[[Category:Pseudogenes]]
 
[[Category:Pseudogenes]]

Revision as of 19:38, 19 April 2011

  • Description: 4'-phosphopantetheine transferases transferase, inactive pseudogene in strain 168

Gene name sfp/1
Synonyms sfp
Essential no
Product 4'-phosphopantetheine transferase
Function phosphopantetheinylates a serine residue in each
of the seven peptidyl carrier protein domains of the
first three subunits of surfactin synthetase (SrfAA-SrfAB-SrfAC) and AcpK
MW, pI 19 kDa, 8.38
Gene length, protein length 495 bp, 165 aa
Immediate neighbours ycxD, sfp/1
Gene sequence (+200bp) Protein sequence
Caution: The sequence for this gene in SubtiList contains errors
Genetic context
Sfp context.gif
This image was kindly provided by SubtiList






Categories containing this gene/protein

miscellaneous metabolic pathways, biofilm formation, biosynthesis of antibacterial compounds, pseudogenes

This gene is a member of the following regulons

The gene

Basic information

  • Locus tag: BSU03570

Phenotypes of a mutant

No swarming motility on B medium. PubMed

Database entries

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

Additional information

  • This gene is a pseudogene in B. subtilis 168 due to a mutation that resulted in an internal frameshift. The second part of the pseudogene is sfp/2.
  • Correction of sfp, epsC, swrAA, and degQ as well as introduction of rapP from a plasmid present in NCIB3610 results in biofilm formation in B. subtilis 168 PubMed


The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: CoA + apo-[peptidyl-carrier protein] = adenosine 3',5'-bisphosphate + holo-[peptidyl-carrier protein] (according to Swiss-Prot)
  • Protein family: Gsp/sfp/hetI/acpT family (according to Swiss-Prot)
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:
  • Interactions:
  • Localization:

Database entries

  • Structure: 1QR0 (complex with CoA)
  • Swiss prot entry:
  • KEGG entry: [2]
  • E.C. number:

Additional information

Expression and regulation

  • Operon:
  • Regulation:
  • Regulatory mechanism:
  • Additional information:

Biological materials

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

Labs working on this gene/protein

Mohamed Marahiel, Marburg University, Germany homepage

Your additional remarks

References

Reviews

Massimiliano Marvasi, Pieter T Visscher, Lilliam Casillas Martinez
Exopolymeric substances (EPS) from Bacillus subtilis: polymers and genes encoding their synthesis.
FEMS Microbiol Lett: 2010, 313(1);1-9
[PubMed:20735481] [WorldCat.org] [DOI] (I p)

Original publications

Jeremy G Owen, Janine N Copp, David F Ackerley
Rapid and flexible biochemical assays for evaluating 4'-phosphopantetheinyl transferase activity.
Biochem J: 2011, 436(3);709-17
[PubMed:21466506] [WorldCat.org] [DOI] (I p)

Anna L McLoon, Sarah B Guttenplan, Daniel B Kearns, Roberto Kolter, Richard Losick
Tracing the domestication of a biofilm-forming bacterium.
J Bacteriol: 2011, 193(8);2027-34
[PubMed:21278284] [WorldCat.org] [DOI] (I p)

F Coutte, V Leclère, M Béchet, J-S Guez, D Lecouturier, M Chollet-Imbert, P Dhulster, P Jacques
Effect of pps disruption and constitutive expression of srfA on surfactin productivity, spreading and antagonistic properties of Bacillus subtilis 168 derivatives.
J Appl Microbiol: 2010, 109(2);480-491
[PubMed:20148996] [WorldCat.org] [DOI] (I p)

Adam Yasgar, Timothy L Foley, Ajit Jadhav, James Inglese, Michael D Burkart, Anton Simeonov
A strategy to discover inhibitors of Bacillus subtilis surfactin-type phosphopantetheinyl transferase.
Mol Biosyst: 2010, 6(2);365-75
[PubMed:20094656] [WorldCat.org] [DOI] (I p)

Joyce E Patrick, Daniel B Kearns
Laboratory strains of Bacillus subtilis do not exhibit swarming motility.
J Bacteriol: 2009, 191(22);7129-33
[PubMed:19749039] [WorldCat.org] [DOI] (I p)

Kassem Hamze, Daria Julkowska, Sabine Autret, Krzysztof Hinc, Krzysztofa Nagorska, Agnieszka Sekowska, I Barry Holland, Simone J Séror
Identification of genes required for different stages of dendritic swarming in Bacillus subtilis, with a novel role for phrC.
Microbiology (Reading): 2009, 155(Pt 2);398-412
[PubMed:19202088] [WorldCat.org] [DOI] (P p)

Juergen J May, Robert Finking, Frank Wiegeshoff, Thomas T Weber, Nina Bandur, Ulrich Koert, Mohamed A Marahiel
Inhibition of the D-alanine:D-alanyl carrier protein ligase from Bacillus subtilis increases the bacterium's susceptibility to antibiotics that target the cell wall.
FEBS J: 2005, 272(12);2993-3003
[PubMed:15955059] [WorldCat.org] [DOI] (P p)

Daniel B Kearns, Frances Chu, Rivka Rudner, Richard Losick
Genes governing swarming in Bacillus subtilis and evidence for a phase variation mechanism controlling surface motility.
Mol Microbiol: 2004, 52(2);357-69
[PubMed:15066026] [WorldCat.org] [DOI] (P p)

Mohammad Reza Mofid, Robert Finking, Lars Oliver Essen, Mohamed A Marahiel
Structure-based mutational analysis of the 4'-phosphopantetheinyl transferases Sfp from Bacillus subtilis: carrier protein recognition and reaction mechanism.
Biochemistry: 2004, 43(14);4128-36
[PubMed:15065855] [WorldCat.org] [DOI] (P p)

Mohammad Reza Mofid, Robert Finking, Mohamed A Marahiel
Recognition of hybrid peptidyl carrier proteins/acyl carrier proteins in nonribosomal peptide synthetase modules by the 4'-phosphopantetheinyl transferases AcpS and Sfp.
J Biol Chem: 2002, 277(19);17023-31
[PubMed:11867633] [WorldCat.org] [DOI] (P p)

H D Mootz, R Finking, M A Marahiel
4'-phosphopantetheine transfer in primary and secondary metabolism of Bacillus subtilis.
J Biol Chem: 2001, 276(40);37289-98
[PubMed:11489886] [WorldCat.org] [DOI] (P p)

K Reuter, M R Mofid, M A Marahiel, R Ficner
Crystal structure of the surfactin synthetase-activating enzyme sfp: a prototype of the 4'-phosphopantetheinyl transferase superfamily.
EMBO J: 1999, 18(23);6823-31
[PubMed:10581256] [WorldCat.org] [DOI] (P p)

L E Quadri, P H Weinreb, M Lei, M M Nakano, P Zuber, C T Walsh
Characterization of Sfp, a Bacillus subtilis phosphopantetheinyl transferase for peptidyl carrier protein domains in peptide synthetases.
Biochemistry: 1998, 37(6);1585-95
[PubMed:9484229] [WorldCat.org] [DOI] (P p)

M M Nakano, M A Marahiel, P Zuber
Identification of a genetic locus required for biosynthesis of the lipopeptide antibiotic surfactin in Bacillus subtilis.
J Bacteriol: 1988, 170(12);5662-8
[PubMed:2848009] [WorldCat.org] [DOI] (P p)

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