4JPJ Crystal structure of the germline-targeting HIV-1 gp120 engineered outer domain, eOD-GT6 date
authors Julien, J.P., Jardine, J., Schief, W.R., Wilson, I.A.
compound source
symmetry
R_factor
R_Free 0.26159
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.50
ligand NAG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceRational HIV Immunogen Design to Target Specific Germline B Cell Receptors., Jardine J, Julien JP, Menis S, Ota T, Kalyuzhniy O, McGuire A, Sok D, Huang PS, Macpherson S, Jones M, Nieusma T, Mathison J, Baker D, Ward AB, Burton DR, Stamatatos L, Nemazee D, Wilson IA, Schief WR, Science. 2013 Mar 29. PMID:23539181
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (110 Kb) [Save to disk]
  • Biological Unit Coordinates (4jpj.pdb1.gz) 29 Kb
  • Biological Unit Coordinates (4jpj.pdb2.gz) 29 Kb
  • Biological Unit Coordinates (4jpj.pdb3.gz) 27 Kb
  • Biological Unit Coordinates (4jpj.pdb4.gz) 28 Kb
  • LPC: Ligand-Protein Contacts for 4JPJ
  • CSU: Contacts of Structural Units for 4JPJ
  • Structure Factors (383 Kb)
  • Retrieve 4JPJ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4JPJ from S2C, [Save to disk]
  • Re-refined 4jpj structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4JPJ 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 4JPJ
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 4JPJ, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4jpj_C] [4jpj] [4jpj_A] [4jpj_D] [4jpj_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 4JPJ
  • Community annotation for 4JPJ at PDBWiki (http://pdbwiki.org)

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