4GBT

Structural characterization of H-1 Parvovirus: comparison of infectious virions to replication defective particles

Structural Biology Knowledgebase: 4GBT SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.259
  • R-Value Work: 0.256

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4GBT

Classification: virus [ VIPERdb ]

Total Structure Weight: 81400.44

Macromolecule Entities
Molecule Chains Length Organism Details
Capsid protein VP1 A 735 Rodent protoparvovirus 1 Mutation: A295G, C296M, L297P, Q298P, G299R, H506R
Gene Name(s):

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

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NA
Query on NA

A SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.259
  • R-Value Work: 0.256
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 255.20 α = 90.00
b = 350.10 β = 90.12
c = 272.10 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-07-27
  • Released Date: 2013-02-27
  • Deposition author(s): Halder, S., Nam, H-J., Govindasamy, L., Vogel, M., Dinsart, C., Salome, N., McKenna, R., Agbandje-McKenna, M.

Revision History

  • 2013-04-24
    Type: Citation | Details: Citation update