1M6K

Structure of the OXA-1 class D beta-lactamase

Structural Biology Knowledgebase: 1M6K SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.203
  • R-Value Work: 0.182

Literature

Macromolecules
Sequence Display for 1M6K

Classification: HYDROLASE

Total Structure Weight: 57589.86

Macromolecule Entities
Molecule Chains Length Organism Details
beta-lactamase OXA-1 A, B 251 Escherichia coli EC#: 3.5.2.6 IUBMB
Mutation: R128G
Gene Name(s): bla oxa1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
MPD
Query on MPD

A, B (4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
KCX
Query on KCX
A, B L-PEPTIDE LINKING C7 H14 N2 O4 LYS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.203
  • R-Value Work: 0.182
  • Space Group: P 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 36.02 α = 70.19
b = 51.62 β = 84.11
c = 72.89 γ = 81.51

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-07-16
  • Released Date: 2003-01-14
  • Deposition author(s): Sun, T., Nukaga, M., Mayama, K., Braswell, E.H., Knox, J.R.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4