1YM5

Crystal structure of YHI9, the yeast member of the phenazine biosynthesis PhzF enzyme superfamily.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.251 
  • R-Value Work: 0.188 
  • R-Value Observed: 0.191 

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This is version 1.2 of the entry. See complete history


Literature

Crystal structure of YHI9, the yeast member of the phenazine biosynthesis PhzF enzyme superfamily

Liger, D.Quevillon-Cheruel, S.Sorel, I.Bremang, M.Blondeau, K.Aboulfath, I.Janin, J.van Tilbeurgh, H.Leulliot, N.

(2005) Proteins 60: 778-786

  • DOI: 10.1002/prot.20548
  • Primary Citation of Related Structures:  
    1YM5

  • PubMed Abstract: 
  • In the Pseudomonas bacterial genomes, the PhzF proteins are involved in the production of phenazine derivative antibiotic and antifungal compounds. The PhzF superfamily however also encompasses proteins in all genomes from bacteria to eukaryotes, for which no function has been assigned ...

    In the Pseudomonas bacterial genomes, the PhzF proteins are involved in the production of phenazine derivative antibiotic and antifungal compounds. The PhzF superfamily however also encompasses proteins in all genomes from bacteria to eukaryotes, for which no function has been assigned. We have determined the three dimensional crystal structure at 2.05 A resolution of YHI9, the yeast member of the PhzF family. YHI9 has a fold similar to bacterial diaminopimelate epimerase, revealing a bimodular structure with an internal symmetry. Residue conservation identifies a putative active site at the interface between the two domains. Evolution of this protein by gene duplication, gene fusion and domain swapping from an ancestral gene containing the "hot dog" fold, identifies the protein as a "kinked double hot dog" fold.


    Organizational Affiliation

    Institut de Biochimie et de Biophysique Moléculaire et Cellulaire (CNRS-UMR 8619), Université Paris-Sud, Orsay, France.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Hypothetical 32.6 kDa protein in DAP2-SLT2 intergenic regionA300Saccharomyces cerevisiaeMutation(s): 0 
EC: 5.1
UniProt
Find proteins for P38765 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P38765 
Go to UniProtKB:  P38765
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.05 Å
  • R-Value Free: 0.251 
  • R-Value Work: 0.188 
  • R-Value Observed: 0.191 
  • Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 81.188α = 90
b = 81.188β = 90
c = 98.146γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
CCP4data scaling
SOLVEphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2005-08-02
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance