1BOG Complex (Antibody Peptide) date Aug 04, 1998
title Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With An Epitope Homologous Peptide
authors T.Keitel, A.Kramer, H.Wessner, C.Scholz, J.Schneider-Mergener, W.
compound source
Molecule: Antibody (Cb 4-1)
Chain: A
Fragment: Fab Fragment
Other_details: Fab Derived From Igg2a Kappa
 Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Strain: Balb-C
Cell_line: Cb 4-1-1-F6 B-Cell Hybridoma

Molecule: Antibody (Cb 4-1)
Chain: B
Fragment: Fab Fragment
Other_details: Fab Derived From Igg2a Kappa
Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Strain: Balbc
Cell_line: Cb 411f6 B-Cell Hybridoma

Molecule: Peptide
Chain: C
Engineered: Yes
symmetry Space Group: P 61 2 2
R_factor 0.246 R_Free 0.307
crystal
cell
length a length b length c angle alpha angle beta angle gamma
104.430 104.430 295.050 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.60 Å
related structures by homologous chain: 1HH6, 1NGW, 1YMH
Primary referenceCrystallographic analysis of anti-p24 (HIV-1) monoclonal antibody cross-reactivity and polyspecificity., Keitel T, Kramer A, Wessner H, Scholz C, Schneider-Mergener J, Hohne W, Cell 1997 Dec 12;91(6):811-20. PMID:9413990
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (74 Kb) [Save to disk]
  • Biological Unit Coordinates (1bog.pdb1.gz) 136 Kb
  • CSU: Contacts of Structural Units for 1BOG
  • Likely Quarternary Molecular Structure file(s) for 1BOG
  • Retrieve 1BOG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1BOG from S2C, [Save to disk]
    • View 1BOG 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 1BOG
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1BOG, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1boga1, region A:1-107 [Jmol] [rasmolscript] [script source]
        - Domain d1boga2, region A:108-214 [Jmol] [rasmolscript] [script source]
        - Domain d1bogb1, region B:1-112 [Jmol] [rasmolscript] [script source]
        - Domain d1bogb2, region B:113-213 [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: [1bog_A] [1bog_C] [1bog_B] [1bog]
  • SWISS-PROT database: [P01864]
  • Domain organization of [GCAB_MOUSE] by SWISSPFAM
  • Domains found in 1BOG: [IG_like] [IGv ] by SMART
    • Other resources with information on 1BOG
  • Community annotation for 1BOG at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Domain movements in 1BOG from the Database of Macromolecular Movements.
  • Images from IMB Jena Image Library of Biological Macromolecules.

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