2X83 Viral Protein date Mar 05, 2010
title Evolutionary Basis Of Hiv Restriction By The Antiretroviral
authors A.J.Price, L.C.James
compound source
Molecule: Hiv-1 Capsid
Chain: A, C
Fragment: N-Terminal Domain, Residues 401-564
Engineered: Yes
Organism_scientific: Human Immunodeficiency Virus 1
Organism_taxid: 82834
Strain: Lw12.3 Isolate
Gene: Gag
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Trim5cypa Fusion Protein
Chain: B, D
Fragment: Residues 304-466
Engineered: Yes

Organism_scientific: Macaca Fascicularis
Organism_common: Crab-Eating Macaque
Organism_taxid: 9541
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
symmetry Space Group: P 1 21 1
R_factor 0.158 R_Free 0.246
crystal
cell
length a length b length c angle alpha angle beta angle gamma
38.520 110.150 67.760 90.00 101.59 90.00
method X-Ray Diffractionresolution 1.70 Å
note 2X83 (Molecule of the Month:pdb163)
Gene
Ontology
ChainFunctionProcessComponent
A, C


D, B


Primary referenceConformational adaptation of Asian macaque TRIMCyp directs lineage specific antiviral activity., Ylinen LM, Price AJ, Rasaiyaah J, Hue S, Rose NJ, Marzetta F, James LC, Towers GJ, PLoS Pathog. 2010 Aug 19;6(8). pii: e1001062. PMID:20808866
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (230 Kb) [Save to disk]
  • Biological Unit Coordinates (2x83.pdb1.gz) 112 Kb
  • Biological Unit Coordinates (2x83.pdb2.gz) 113 Kb
  • CSU: Contacts of Structural Units for 2X83
  • Structure Factors (773 Kb)
  • Retrieve 2X83 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2X83 from S2C, [Save to disk]
  • Re-refined 2x83 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2X83 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 2X83
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 2X83, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2x83_D] [2x83_B] [2x83_C] [2x83] [2x83_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 2X83
  • Community annotation for 2X83 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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