5TIP Viral Protein date Oct 03, 2016
title The Structure Of The Major Capsid Protein Of Pbcv-1
authors T.Klose, C.De Castro, I.Speciale, A.Molinaro, J.L.Van Etten, M.G.
compound source
Molecule: Major Capsid Protein
Chain: A, B, C, D
Synonym: Mcp, Vp54
 Organism_scientific: Paramecium Bursaria Chlorella Virus 1
Organism_common: Pbcv-1
Organism_taxid: 10506
symmetry Space Group: P 21 3
R_factor 0.176 R_Free 0.206
crystal
cell
length a length b length c angle alpha angle beta angle gamma
188.792 188.792 188.792 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand 7CV, BGC, FUC, GLA, HG, MAN, RM4, XXR, XYP enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceStructure of the chlorovirus PBCV-1 major capsid glycoprotein determined by combining crystallographic and carbohydrate molecular modeling approaches., De Castro C, Klose T, Speciale I, Lanzetta R, Molinaro A, Van Etten JL, Rossmann MG, Proc Natl Acad Sci U S A. 2017 Dec 18. pii: 1613432115. doi:, 10.1073/pnas.1613432115. PMID:29255015
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (602 Kb) [Save to disk]
  • Biological Unit Coordinates (5tip.pdb1.gz) 447 Kb
  • Biological Unit Coordinates (5tip.pdb2.gz) 448 Kb
  • Biological Unit Coordinates (5tip.pdb3.gz) 441 Kb
  • Biological Unit Coordinates (5tip.pdb4.gz) 442 Kb
  • LPC: Ligand-Protein Contacts for 5TIP
  • CSU: Contacts of Structural Units for 5TIP
  • Structure Factors (1133 Kb)
  • Retrieve 5TIP in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5TIP from S2C, [Save to disk]
    • View 5TIP 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 5TIP
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5tip_C] [5tip_B] [5tip_A] [5tip_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5TIP
  • Community annotation for 5TIP at PDBWiki (http://pdbwiki.org)

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