1GGI

CRYSTAL STRUCTURE OF AN HIV-1 NEUTRALIZING ANTIBODY 50.1 IN COMPLEX WITH ITS V3 LOOP PEPTIDE ANTIGEN


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Work: 0.188 
  • R-Value Observed: 0.188 

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This is version 1.2 of the entry. See complete history


Literature

Crystal structure of a human immunodeficiency virus type 1 neutralizing antibody, 50.1, in complex with its V3 loop peptide antigen.

Rini, J.M.Stanfield, R.L.Stura, E.A.Salinas, P.A.Profy, A.T.Wilson, I.A.

(1993) Proc Natl Acad Sci U S A 90: 6325-6329

  • DOI: 10.1073/pnas.90.13.6325
  • Primary Citation of Related Structures:  
    1GGI

  • PubMed Abstract: 
  • The crystal structure of the Fab fragment of a human immunodeficiency virus type 1 (HIV-1) neutralizing monoclonal antibody Fab has been determined at 2.8 A resolution in complex with a linear 16-residue peptide from the third hypervariable region (V ...

    The crystal structure of the Fab fragment of a human immunodeficiency virus type 1 (HIV-1) neutralizing monoclonal antibody Fab has been determined at 2.8 A resolution in complex with a linear 16-residue peptide from the third hypervariable region (V3) of gp120. The first 9 residues of the peptide are ordered in the electron density maps, and their conformation is in partial agreement with the beta-strand-type II beta-turn structure predicted for this portion of the V3 loop. Notably, several of the peptide residues that are well conserved among different HIV-1 isolates contact a nonpolar 25-A-long groove in the antibody-combining site. The largely extended structure of the peptide differs from the beta-turns seen as the primary determinants in other published anti-peptide Fab structures. Analysis of the specific Fab-peptide interactions only partially explains the MN isolate specificity shown by this antibody.


    Related Citations: 
    • Crystallization, Sequence, and Preliminary Crystallographic Data for an Antipeptide Fab 50.1 And Peptide Complexes with the Principal Neutralizing Determinant of HIV-1 Gp120
      Stura, E.A., Stanfield, R.L., Fieser, G.G., Silver, S., Rogusca, M., Hincapie, L.M., Simmerman, H.K.B., Profy, A.T., Wilson, I.A.
      (1992) Proteins 14: 499
    • Major Antigen-Induced Domain Rearrangements in an Antibody
      Stanfield, R.L., Takimoto-Kamimura, M., Rini, J.M., Profy, A.T., Wilson, I.A.
      () To be published --: --

    Organizational Affiliation

    Department of Molecular Biology, Scripps Research Institute, La Jolla, CA 92037.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
IGG2A 50.1 FAB (LIGHT CHAIN)LM218Mus musculusMutation(s): 0 
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
IGG2A 50.1 FAB (HEAVY CHAIN)HJ222N/AMutation(s): 0 
Find proteins for P01863 (Mus musculus)
Explore P01863 
Go to UniProtKB:  P01863
Protein Feature View
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
HIV-1 V3 LOOP PEPTIDE ANTIGENPQ16N/AMutation(s): 0 
Find proteins for P05877 (Human immunodeficiency virus type 1 group M subtype B (isolate MN))
Explore P05877 
Go to UniProtKB:  P05877
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Work: 0.188 
  • R-Value Observed: 0.188 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 130.33α = 90
b = 52.57β = 97.5
c = 82.04γ = 90
Software Package:
Software NamePurpose
X-PLORmodel building
X-PLORrefinement
X-PLORphasing

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1993-10-31
    Type: Initial release
  • Version 1.1: 2008-03-24
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance