1C8D Virus date May 05, 2000
title Canine Panleukopenia Virus Empty Capsid Structure
authors M.G.Rossmann, A.A.Simpson
compound source
Molecule: Canine Parvovirus Capsid
Chain: A
Synonym: Cpv
Other_details: Capsid Of Canine Parvovirus Strain D - Empty
Organism_scientific: Canine Parvovirus
Organism_taxid: 10788
Strain: D
symmetry Space Group: P 1
R_factor 0.214 R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
267.563 268.446 274.328 61.95 62.62 60.19
method X-Ray Diffractionresolution 3.00 Å
ligand CA enzyme
related structures by homologous chain: 1C8G, 2CAS
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceHost range and variability of calcium binding by surface loops in the capsids of canine and feline parvoviruses., Simpson AA, Chandrasekar V, Hebert B, Sullivan GM, Rossmann MG, Parrish CR, J Mol Biol 2000 Jul 14;300(3):597-610. PMID:10884355
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (95 Kb) [Save to disk]
  • Biological Unit Coordinates (1c8d.pdb1.gz) 5179 Kb
  • LPC: Ligand-Protein Contacts for 1C8D
  • CSU: Contacts of Structural Units for 1C8D
  • Likely Quarternary Molecular Structure file(s) for 1C8D
  • Structure Factors (2758 Kb)
  • Retrieve 1C8D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1C8D from S2C, [Save to disk]
  • View 1C8D 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 1C8D
  • VIPERdb: visual, structural and computational analysis of 1C8D
  • 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 1C8D, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1c8da_, region A [Jmol] [rasmolscript] [script source]
  • Fold representative 1c8d 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: [1c8d_A] [1c8d]
  • SWISS-PROT database: [P30129]
  • Domain organization of [COAT_PAVC2] by SWISSPFAM
  • Other resources with information on 1C8D
  • Community annotation for 1C8D 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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