4G0R

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

Structural Biology Knowledgebase: 4G0R SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.217
  • R-Value Work: 0.216

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4G0R

Classification: virus / dna [ VIPERdb ]

Total Structure Weight: 85031.53


Macromolecule Entities
Molecule Chains Length Organism Details
Capsid protein VP1 A 735 Rodent protoparvovirus 1 Mutation: A295G, C296M, L297P, Q298P, G299R, H506R
Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(P*CP*TP*GP*AP*CP*TP*TP*CP*AP*A)-3') C 10 Rodent protoparvovirus 1

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
CL
Query on CL

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
JSmol
DC
Query on DC

A 2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE
C9 H14 N3 O7 P
NCMVOABPESMRCP-SHYZEUOFSA-N
Ligand Explorer
 
JSmol
EDO
Query on EDO

A 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
MG
Query on MG

C MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
NA
Query on NA

A SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Ligand Explorer
 
JSmol

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.217
  • R-Value Work: 0.216
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 255.40 α = 90.00
b = 350.40 β = 90.34
c = 271.60 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-07-09
  • Released Date: 2013-02-27
  • Deposition author(s): Halder, S., Agbandje-McKenna, M., Nam, H.-J., Govindasamy, L., Vogel, M., Dinsart, C., Salome, N., McKenna, R.

Revision History

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