6WE5 | pdb_00006we5

Crystal structure of an inorganic pyrophosphatase from Chlamydia trachomatis D/UW-3/Cx


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free: 
    0.228 (Depositor), 0.228 (DCC) 
  • R-Value Work: 
    0.181 (Depositor) 
  • R-Value Observed: 
    0.184 (Depositor) 

Starting Model: experimental
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This is version 1.2 of the entry. See complete history

Literature

Crystal structure of an inorganic pyrophosphatase from Chlamydia trachomatis D/UW-3/Cx.

Maddy, J.Staker, B.L.Subramanian, S.Abendroth, J.Edwards, T.E.Myler, P.J.Hybiske, K.Asojo, O.A.

(2022) Acta Crystallogr F Struct Biol Commun 78: 135-142

  • DOI: https://doi.org/10.1107/S2053230X22002138
  • Primary Citation Related Structures: 
    6WE5

  • PubMed Abstract: 

    Chlamydia trachomatis is the leading cause of bacterial sexually transmitted infections globally and is one of the most commonly reported infections in the United States. There is a need to develop new therapeutics due to drug resistance and the failure of current treatments to clear persistent infections. Structures of potential C. trachomatis rational drug-discovery targets, including C. trachomatis inorganic pyrophosphatase (CtPPase), have been determined by the Seattle Structural Genomics Center for Infectious Disease. Inorganic pyrophosphatase hydrolyzes inorganic pyrophosphate during metabolism. Furthermore, bacterial inorganic pyrophosphatases have shown promise for therapeutic discovery. Here, a 2.2 Å resolution X-ray structure of CtPPase is reported. The crystal structure of CtPPase reveals shared structural features that may facilitate the repurposing of inhibitors identified for bacterial inorganic pyrophosphatases as starting points for new therapeutics for C. trachomatis.


  • Organizational Affiliation
    • Department of Chemistry and Biochemistry, Hampton University, 100 East Queen Street, Hampton, VA 23668, USA.

Macromolecule Content 

  • Total Structure Weight: 73.41 kDa 
  • Atom Count: 4,773 
  • Modeled Residue Count: 618 
  • Deposited Residue Count: 651 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Inorganic pyrophosphatase
A, B, C
217Chlamydia trachomatis D/UW-3/CXMutation(s): 0 
Gene Names: ppaCT_772
EC: 3.6.1.1
UniProt
Find proteins for O84777 (Chlamydia trachomatis serovar D (strain ATCC VR-885 / DSM 19411 / UW-3/Cx))
Explore O84777 
Go to UniProtKB:  O84777
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO84777
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.25 Å
  • R-Value Free:  0.228 (Depositor), 0.228 (DCC) 
  • R-Value Work:  0.181 (Depositor) 
  • R-Value Observed: 0.184 (Depositor) 
Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 77.16α = 90
b = 121.19β = 90
c = 124.5γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
XSCALEdata scaling
PHASERphasing
PHENIXrefinement
PDB_EXTRACTdata extraction

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2020-04-08
    Type: Initial release
  • Version 1.1: 2022-03-16
    Changes: Database references, Derived calculations
  • Version 1.2: 2023-10-18
    Changes: Data collection, Refinement description