4KQO

Crystal structure of penicillin-binding protein 3 from pseudomonas aeruginosa in complex with piperacillin

Structural Biology Knowledgebase: 4KQO SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.31 Å
  • R-Value Free: 0.250
  • R-Value Work: 0.217

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4KQO

Classification: Biosynthetic Protein / Antibiotic

Total Structure Weight: 123761.94

Macromolecule Entities
Molecule Chains Length Organism Details
Penicillin-binding protein 3 A, B 564 Pseudomonas aeruginosa Gene Name(s): ftsI PA4418

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
JPP
Query on JPP

A, B Piperacillin (Open Form)
C23 H29 N5 O7 S
CJYMHKMECTVNSA-XLMAVXFVSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A, B GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
IMD
Query on IMD

B IMIDAZOLE
C3 H5 N2
RAXXELZNTBOGNW-UHFFFAOYSA-O
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

B CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
JPP N/A in BindingDB
N/A in BindingMoad
IC50: 166 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.31 Å
  • R-Value Free: 0.250
  • R-Value Work: 0.217
  • Space Group: P 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 57.05 α = 71.26
b = 74.93 β = 86.04
c = 82.79 γ = 85.59

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-05-15
  • Released Date: 2013-11-06
  • Deposition author(s): Nettleship, J.E., Stuart, D.I., Owens, R.J., Ren, J.

Revision History

No revisions since initial release