1E3U

MAD structure of OXA10 class D beta-lactamase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.66 Å
  • R-Value Free: 0.210 
  • R-Value Work: 0.181 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Insights Into Class D Beta-Lactamases are Revealed by the Crystal Structure of the Oxa10 Enzyme from Pseudomonas Aeruginosa

Maveyraud, L.Golemi, D.Kotra, L.P.Tranier, S.Vakulenko, S.Mobashery, S.Samama, J.P.

(2000) Structure 8: 1289

  • DOI: 10.1016/s0969-2126(00)00534-7
  • Primary Citation of Related Structures:  
    1E3U, 1E4D

  • PubMed Abstract: 
  • beta-lactam antibiotic therapies are commonly challenged by the hydrolytic activities of beta-lactamases in bacteria. These enzymes have been grouped into four classes: A, B, C, and D. Class B beta-lactamases are zinc dependent, and enzymes of classes A, C, and D are transiently acylated on a serine residue in the course of the turnover chemistry ...

    beta-lactam antibiotic therapies are commonly challenged by the hydrolytic activities of beta-lactamases in bacteria. These enzymes have been grouped into four classes: A, B, C, and D. Class B beta-lactamases are zinc dependent, and enzymes of classes A, C, and D are transiently acylated on a serine residue in the course of the turnover chemistry. While class A and C beta-lactamases have been extensively characterized by biochemical and structural methods, class D enzymes remain the least studied despite their increasing importance in the clinic.


    Organizational Affiliation

    Groupe de Cristallographie Biologique IPBS-CNRS, Toulouse, France.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
BETA-LACTAMASE OXA-10A, B, C246Pseudomonas aeruginosaMutation(s): 0 
Gene Names: blaoxa10pse2
EC: 3.5.2.6
UniProt
Find proteins for P14489 (Pseudomonas aeruginosa)
Explore P14489 
Go to UniProtKB:  P14489
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
BETA-LACTAMASE OXA-10D246Pseudomonas aeruginosaMutation(s): 0 
Gene Names: blaoxa10pse2
EC: 3.5.2.6
UniProt
Find proteins for P14489 (Pseudomonas aeruginosa)
Explore P14489 
Go to UniProtKB:  P14489
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
AUC
Query on AUC

Download Ideal Coordinates CCD File 
AA [auth C], E [auth A], GA [auth D], HA [auth D], IA [auth D], N [auth B], Y [auth C], Z [auth C]GOLD (I) CYANIDE ION
C2 Au N2
DGOHFTDNMSZWDQ-UHFFFAOYSA-N
 Ligand Interaction
SO4
Query on SO4

Download Ideal Coordinates CCD File 
BA [auth C] , CA [auth C] , F [auth A] , G [auth A] , H [auth A] , I [auth A] , J [auth A] , JA [auth D] , 
BA [auth C],  CA [auth C],  F [auth A],  G [auth A],  H [auth A],  I [auth A],  J [auth A],  JA [auth D],  K [auth A],  KA [auth D],  LA [auth D],  O [auth B],  P [auth B],  Q [auth B],  R [auth B]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
EDO
Query on EDO

Download Ideal Coordinates CCD File 
DA [auth C] , EA [auth C] , FA [auth C] , L [auth A] , M [auth A] , MA [auth D] , S [auth B] , T [auth B] , 
DA [auth C],  EA [auth C],  FA [auth C],  L [auth A],  M [auth A],  MA [auth D],  S [auth B],  T [auth B],  U [auth B],  V [auth B],  W [auth B],  X [auth B]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.66 Å
  • R-Value Free: 0.210 
  • R-Value Work: 0.181 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 65.53α = 90
b = 82.94β = 95.03
c = 101.42γ = 90
Software Package:
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling
SHARPphasing
SOLVEphasing
REFMACrefinement

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2001-01-12
    Type: Initial release
  • Version 1.1: 2011-05-08
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2017-07-12
    Changes: Derived calculations
  • Version 1.4: 2019-07-24
    Changes: Data collection