4I3S Crystal structure of the outer domain of HIV-1 gp120 in complex with VRC-PG04 space group P21 date
authors Joyce, M.G., Biertumpfel, C., Nabel, G.J., Kwong, P.D.
compound source
symmetry
R_factor
R_Free 0.3199
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.85
ligand CA enzyme
Gene
Ontology
ChainFunctionProcessComponent
G


Primary referenceOuter domain of HIV-1 gp120: Antigenic optimization, structural malleability, and crystal structure with antibody VRC-PG04., Joyce MG, Kanekiyo M, Xu L, Biertumpfel C, Boyington JC, Moquin S, Shi W, Wu X, Yang ZY, Yang Y, Zhang B, Zheng A, Zhou T, Zhu J, Mascola JR, Kwong PD, Nabel GJ, J Virol. 2012 Dec 12. PMID:23236069
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (199 Kb) [Save to disk]
  • Biological Unit Coordinates (4i3s.pdb1.gz) 194 Kb
  • LPC: Ligand-Protein Contacts for 4I3S
  • CSU: Contacts of Structural Units for 4I3S
  • Structure Factors (386 Kb)
  • Retrieve 4I3S in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4I3S from S2C, [Save to disk]
  • Re-refined 4i3s structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4I3S 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 4I3S
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 4I3S, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4i3s_H] [4i3s_L] [4i3s] [4i3s_G]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4I3S: [IG_like] [IGv ] by SMART
    • Other resources with information on 4I3S
  • Community annotation for 4I3S at PDBWiki (http://pdbwiki.org)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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