2F5B CRYSTAL STRUCTURE OF FAB' FROM THE HIV-1 NEUTRALIZING ANTIBODY 2F5 IN COMPLEX WITH ITS GP41 EPITOPE date
authors Bryson, S., Julien, J.P., Hynes, R.C., Pai, E.F.
compound source
symmetry
R_factor
R_Free 0.258
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.00
related structures by homologous chain: 1D6V, 1U8I, 1YY8
Primary referenceCrystallographic definition of the epitope promiscuity of the broadly neutralizing anti-human immunodeficiency virus type 1 antibody 2F5: vaccine design implications., Bryson S, Julien JP, Hynes RC, Pai EF, J Virol. 2009 Nov;83(22):11862-75. Epub 2009 Sep 9. PMID:19740978
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (81 Kb) [Save to disk]
  • Biological Unit Coordinates (2f5b.pdb1.gz) 77 Kb
  • CSU: Contacts of Structural Units for 2F5B
  • Likely Quarternary Molecular Structure file(s) for 2F5B
  • Structure Factors (701 Kb)
  • Retrieve 2F5B in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2F5B from S2C, [Save to disk]
  • Re-refined 2f5b structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2F5B 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 2F5B
  • 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 2F5B, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d2f5bh1, region H:1-132 [Jmol] [rasmolscript] [script source]
        - Domain d2f5bh2, region H:133-235 [Jmol] [rasmolscript] [script source]
        - Domain d2f5bl1, region L:1-107 [Jmol] [rasmolscript] [script source]
        - Domain d2f5bl2, region L:108-214 [Jmol] [rasmolscript] [script source]
  • 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: [2f5b] [2f5b_L] [2f5b_H] [2f5b_P]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 2F5B: [IG_like] [IGv ] by SMART
  • Other resources with information on 2F5B
  • Community annotation for 2F5B at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science