1H8Y

Crystal structure of the class D beta-lactamase OXA-13 in complex with meropenem


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.257
  • R-Value Work: 0.204

Literature

Macromolecules
Sequence Display for 1H8Y

Classification: HYDROLASE

Total Structure Weight: 56056.14

Macromolecule Entities
Molecule Chains Length Organism Details
BETA-LACTAMASE A, B 247 Pseudomonas aeruginosa EC#: 3.5.2.6 IUBMB
Details: THERE IS AN ESTER LINK BETWEEN SER A 67 OG AND MER A 300 C7 AND BETWEEN SER B 67 OG AND MER B 300 C7
Gene Name(s): bla oxa-13
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B (4R,5S)-3-{[(3S,5S)-5-(dimethylcarbamoyl)pyrrolidin- 3-yl]sulfanyl}-5-[(2S,3R)-3-hydroxy-1-oxobutan- 2-yl]-4-methyl-4,5-dihydro-1H-pyrrole-2-carboxylic acid
Meropenem, bound form (Synonym)
C17 H27 N3 O5 S
DYQHXZPAIVAJRU-HTXLXMOSSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
MER N/A in BindingDB
N/A in BindingMoad
IC50: 20 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.257
  • R-Value Work: 0.204
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 45.34 α = 90.00
b = 112.30 β = 90.00
c = 124.98 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-02-17
  • Released Date: 2001-07-12
  • Deposition author(s): Pernot, L., Frenois, F., Rybkine, T., L'Hermite, G., Petrella, S., Delettre, J., Jarlier, V., Collatz, E., Sougakoff, W.

Revision History

  • 2013-02-06
    Type: Version format compliance | Details: REMARK 4
  • 2013-02-06
    Type: Non-polymer description | Details: HETSYN,FORMUL,HETNAM
  • 2013-02-06
    Type: Biological assembly | Details: REMARK 300,REMARK 350
  • 2013-02-06
    Type: Polymer description | Details: COMPND
  • 2013-02-06
    Type: Function and keywords | Details: KEYWDS
  • 2013-02-06
    Type: Atom nomenclature | Details: HETATM
  • 2013-02-06
    Type: Other | Details: SCALE1,REMARK 525,MASTER
  • 2013-02-06
    Type: Entry authorship | Details: AUTHOR
  • 2013-02-06
    Type: Linkage | Details: CONECT,LINK
  • 2013-02-06
    Type: Citation | Details: JRNL,REMARK 1