3QNJ

Crystal structure of the substrate binding domain of E.coli DnaK in complex with the antimicrobial peptide oncocin

Structural Biology Knowledgebase: 3QNJ SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.28 Å
  • R-Value Free: 0.284
  • R-Value Work: 0.211

Literature

Macromolecules
Sequence Display for 3QNJ

Classification: CHAPERONE / ANTIMICROBIAL PROTEIN

Total Structure Weight: 52839.81

Macromolecule Entities
Molecule Chains Length Organism Details
Chaperone protein DnaK A, B 219 Escherichia coli Fragment: UNP residues 389-607
Gene Name(s): dnaK groP grpF seg b0014 JW0013
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
antimicrobial peptide oncocin C, D 19 Oncopeltus fasciatus

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SO4
Query on SO4

A, B, C SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
ORN
Query on ORN
C, D L-PEPTIDE LINKING C5 H12 N2 O2 ALA

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.28 Å
  • R-Value Free: 0.284
  • R-Value Work: 0.211
  • Space Group: P 21 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 77.66 α = 90.00
b = 161.14 β = 90.00
c = 44.63 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-02-08
  • Released Date: 2011-03-23
  • Deposition author(s): Zahn, M., Straeter, N.

Revision History

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