7ZW9

Crystal structure of a gamma-carbonic anhydrase from the pathogenic bacterium Burkholderia pseudomallei


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.197 

Starting Model: experimental
View more details

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

Biochemical, structural, and computational studies of a gamma-carbonic anhydrase from the pathogenic bacterium Burkholderia pseudomallei.

Di Fiore, A.De Luca, V.Langella, E.Nocentini, A.Buonanno, M.Maria Monti, S.Supuran, C.T.Capasso, C.De Simone, G.

(2022) Comput Struct Biotechnol J 20: 4185-4194

  • DOI: https://doi.org/10.1016/j.csbj.2022.07.033
  • Primary Citation of Related Structures:  
    7ZW9

  • PubMed Abstract: 

    Melioidosis is a severe disease caused by the highly pathogenic gram-negative bacterium Burkholderia pseudomallei . Several studies have highlighted the broad resistance of this pathogen to many antibiotics and pointed out the pivotal importance of improving the pharmacological arsenal against it. Since γ-carbonic anhydrases (γ-CAs) have been recently introduced as potential and novel antibacterial drug targets, in this paper, we report a detailed characterization of BpsγCA, a γ-CA from B . pseudomallei by a multidisciplinary approach. In particular, the enzyme was recombinantly produced and biochemically characterized. Its catalytic activity at different pH values was measured, the crystal structure was determined and theoretical pKa calculations were carried out. Results provided a snapshot of the enzyme active site and dissected the role of residues involved in the catalytic mechanism and ligand recognition. These findings are an important starting point for developing new anti-melioidosis drugs targeting BpsγCA.


  • Organizational Affiliation

    Institute of Biostructures and Bioimaging-CNR, via Pietro Castellino 111, 80131 Napoli, Italy.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Bacterial transferase hexapeptide family protein210Burkholderia pseudomalleiMutation(s): 0 
Gene Names: yrdABOC38_15155CXQ84_07800DF122_29500DP49_2200ERS012318_04959SAMEA1968934_03882X994_171
UniProt
Find proteins for Q63SQ4 (Burkholderia pseudomallei (strain K96243))
Explore Q63SQ4 
Go to UniProtKB:  Q63SQ4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ63SQ4
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.197 
  • Space Group: P 63
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 90.13α = 90
b = 90.13β = 90
c = 48.52γ = 120
Software Package:
Software NamePurpose
SCALEPACKdata scaling
CNSrefinement
PDB_EXTRACTdata extraction
HKL-2000data reduction
AMoREphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2022-09-07
    Type: Initial release
  • Version 1.1: 2024-01-31
    Changes: Data collection, Refinement description