1AFV

HIV-1 CAPSID PROTEIN (P24) COMPLEX WITH FAB25.3


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.70 Å
  • R-Value Free: 0.324 
  • R-Value Work: 0.217 
  • R-Value Observed: 0.217 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Crystal structure of dimeric HIV-1 capsid protein.

Momany, C.Kovari, L.C.Prongay, A.J.Keller, W.Gitti, R.K.Lee, B.M.Gorbalenya, A.E.Tong, L.McClure, J.Ehrlich, L.S.Summers, M.F.Carter, C.Rossmann, M.G.

(1996) Nat Struct Biol 3: 763-770

  • DOI: https://doi.org/10.1038/nsb0996-763
  • Primary Citation of Related Structures:  
    1AFV

  • PubMed Abstract: 

    X-ray diffraction analysis of a human immunodeficiency virus (HIV-1) capsid (CA) protein shows that each monomer within the dimer consists of seven alpha-helices, five of which are arranged in a coiled coil-like structure. Sequence assignments were made for two of the helices, and tentative connectivity of the remainder of the protein was confirmed by the recent solution structure of a monomeric N-terminal fragment. The C-terminal third of the protein is mostly disordered in the crystal. The longest helices in the coiled coil-like structure are separated by a long, highly antigenic peptide that includes the binding site of an antibody fragment complexed with CA in the crystal. The site of binding of the Fab, the position of the antigenic loop and the site of cleavage between the matrix protein and CA establish the side of the dimer that would be on the exterior of the retroviral core.


  • Organizational Affiliation

    Department of Biological Sciences, Purdue University, West Lafayette, IN 47907, USA.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
HUMAN IMMUNODEFICIENCY VIRUS TYPE 1 CAPSID PROTEIN
A, B
151Human immunodeficiency virus 1Mutation(s): 0 
Gene Names: GAG
UniProt
Find proteins for P12497 (Human immunodeficiency virus type 1 group M subtype B (isolate NY5))
Explore P12497 
Go to UniProtKB:  P12497
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UniProt GroupP12497
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
ANTIBODY FAB25.3 FRAGMENT (LIGHT CHAIN)C [auth L],
E [auth M]
217Mus musculusMutation(s): 0 
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
ANTIBODY FAB25.3 FRAGMENT (HEAVY CHAIN)D [auth H],
F [auth K]
220Mus musculusMutation(s): 0 
UniProt
Find proteins for Q99LC4 (Mus musculus)
Explore Q99LC4 
Go to UniProtKB:  Q99LC4
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UniProt GroupQ99LC4
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.70 Å
  • R-Value Free: 0.324 
  • R-Value Work: 0.217 
  • R-Value Observed: 0.217 
  • Space Group: P 21 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 119.9α = 90
b = 92.3β = 90
c = 149.3γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
X-PLORmodel building
X-PLORrefinement
X-PLORphasing

Structure Validation

View Full Validation Report



Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 1997-08-20
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance