1QZU

crystal structure of human phosphopantothenoylcysteine decarboxylase

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.91 Å
  • R-Value Free: 0.342 
  • R-Value Work: 0.293 
  • R-Value Observed: 0.293 

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This is version 1.3 of the entry. See complete history. 


Literature

Unusual space-group pseudosymmetry in crystals of human phosphopantothenoylcysteine decarboxylase.

Manoj, N., Ealick, S.E.

(2003) Acta Crystallogr D Biol Crystallogr 59: 1762-1766

  • DOI: https://doi.org/10.1107/s0907444903016214
  • Primary Citation of Related Structures:  
    1QZU

  • PubMed Abstract: 

    Phosphopantothenoylcysteine (PPC) decarboxylase is an essential enzyme in the biosynthesis of coenzyme A and catalyzes the decarboxylation of PPC to phosphopantetheine. Human PPC decarboxylase has been expressed in Escherichia coli, purified and crystallized. The Laue class of the diffraction data appears to be 3m, suggesting space group R32 with two monomers per asymmetric unit. However, the crystals belong to the space group R3 and the asymmetric unit contains four monomers. The structure has been solved using molecular replacement and refined to a current R factor of 29%. The crystal packing can be considered as two interlaced lattices, each consistent with space group R32 and with the corresponding twofold axes parallel to each other but separated along the threefold axis. Thus, the true space group is R3 with four monomers per asymmetric unit.

    • Organizational Affiliation: 

    Department of Chemistry and Chemical Biology, Cornell University, Ithaca, NY 14853, USA.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
hypothetical protein MDS018
A, B, C, D
206Homo sapiensMutation(s): 0 
Gene Names: coac
EC: 4.1.1.36
UniProt & NIH Common Fund Data Resources
Find proteins for Q96CD2 (Homo sapiens)
Explore Q96CD2 
Go to UniProtKB:  Q96CD2
PHAROS:  Q96CD2
GTEx:  ENSG00000138621 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ96CD2
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.91 Å
  • R-Value Free: 0.342 
  • R-Value Work: 0.293 
  • R-Value Observed: 0.293 
  • Space Group: H 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 124.78α = 90
b = 124.78β = 90
c = 153.5γ = 120
Software Package:
Software NamePurpose
CNSrefinement
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2004-03-23
    Type: Initial release
  • Version 1.1: 2008-04-29
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Derived calculations, Version format compliance
  • Version 1.3: 2023-08-23
    Changes: Data collection, Database references, Derived calculations, Refinement description