4DPV Virus Dna date Feb 01, 1996
title Parvovirusdna Complex
authors M.S.Chapman, M.G.Rossmann
compound source
Molecule: Protein (Parvovirus Coat Protein)
Chain: Z
Organism_scientific: Canine Parvovirus
Organism_taxid: 10788
Strain: D
Cell_line: Cultured In Canine A72 Cell Line

Molecule: Dna (5'-D(Aptpapcpcptpcptptpgpc)-3')
Chain: N
Engineered: Yes

Synthetic: Yes
symmetry Space Group: P 1 21 1
R_Free 0.283
length a length b length c angle alpha angle beta angle gamma
263.210 349.010 267.320 90.00 90.82 90.00
method X-Ray Diffractionresolution 2.90 Å
ligand MG enzyme
note 4DPV (Molecule of the Month:pdb125)supersedes 3DPV, 2DPV
related structures by homologous chain: 2CAS

Primary referenceCanine parvovirus capsid structure, analyzed at 2.9 A resolution., Xie Q, Chapman MS, J Mol Biol 1996 Dec 6;264(3):497-520. PMID:8969301
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (107 Kb) [Save to disk]
  • Biological Unit Coordinates (4dpv.pdb1.gz) 5508 Kb
  • LPC: Ligand-Protein Contacts for 4DPV
  • CSU: Contacts of Structural Units for 4DPV
  • Likely Quarternary Molecular Structure file(s) for 4DPV
  • Structure Factors (7571 Kb)
  • Retrieve 4DPV in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4DPV from S2C, [Save to disk]
  • View 4DPV in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 4DPV
  • VIPERdb: visual, structural and computational analysis of 4DPV
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4DPV, from MSDmotif at EBI
  • Genome occurence of 4DPV's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d4dpvz_, region Z [Jmol] [rasmolscript] [script source]
  • Fold representative 4dpv from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4dpv_Z] [4dpv] [4dpv_N]
  • SWISS-PROT database: [P17455]
  • Domain organization of [COAT_PAVCD] by SWISSPFAM
  • Other resources with information on 4DPV
  • Community annotation for 4DPV at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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