3ZED

X-ray structure of the birnavirus VP1-VP3 complex

Structural Biology Knowledgebase: 3ZED SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.214
  • R-Value Work: 0.179

Literature

Macromolecules
Sequence Display for 3ZED

Classification: VIRAL PROTEIN

Total Structure Weight: 369144.69

Macromolecule Entities
Molecule Chains Length Organism Details
RNA-DIRECTED RNA POLYMERASE A, B, C 853 Infectious pancreatic necrosis virus EC#: 2.7.7.48 IUBMB
Gene Name(s): VP1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
CAPSID PROTEIN VP3 D, E, F 242 Infectious pancreatic necrosis virus Fragment: VP3 C-TERMINAL PEPTIDE RESIDUES 735-972
Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

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

A, B, C POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.214
  • R-Value Work: 0.179
  • Space Group: P 21 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 118.27 α = 90.00
b = 341.87 β = 90.00
c = 59.70 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-12-04
  • Released Date: 2013-01-16
  • Deposition author(s): Bahar, M.W., Sarin, L.P., Graham, S.C., Pang, J., Bamford, D.H., Stuart, D.I., Grimes, J.M.

Revision History

  • 2013-03-06
    Type: Citation | Details: JRNL