1J8N

Solution structure of beta3-analogue peptide corresponding to the gp41 600-612 loop of HIV.


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 50 
  • Conformers Submitted: 27 
  • Selection Criteria: target function 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Structural and immunological characterisation of heteroclitic peptide analogues corresponding to the 600-612 region of the HIV envelope gp41 glycoprotein.

Du, A.P.Limal, D.Semetey, V.Dali, H.Jolivet, M.Desgranges, C.Cung, M.T.Briand, J.P.Petit, M.C.Muller, S.

(2002) J.Mol.Biol. 323: 503-521

  • Primary Citation of Related Structures:  1IM7, 1J8Z, 1J9V, 1JAA, 1JAR, 1JC8, 1JCP, 1JD8, 1JDK

  • PubMed Abstract: 
  • The conformational and immunological properties of different analogues corresponding to the 600-612 disulfide loop of the human immunodeficiency virus (HIV) gp41 glycoprotein envelope were studied. Fourteen analogues were designed and synthesised; na ...

    The conformational and immunological properties of different analogues corresponding to the 600-612 disulfide loop of the human immunodeficiency virus (HIV) gp41 glycoprotein envelope were studied. Fourteen analogues were designed and synthesised; namely, a series of seven analogues in which the disulfide bond was replaced by a lactam bridge and a series of seven analogues in which one residue of each analogue at a time, was replaced by its corresponding homologised alpha-amino acid (beta(3)-amino acid). In the case of the lactam analogues, the influence of the two possible CO-NH and NH-CO orientations of the lactam bridge as well as the size of the lactam ring was explored. The analogues were tested in ELISA with monoclonal antibodies raised against the 600-612 cyclic parent peptide as well as with sera from HIV-1 infected patients. A structural analysis of the parent and analogue peptides was carried out in dimethyl sulfoxide (DMSO-d(6)) using two-dimensional NMR techniques and molecular dynamics simulations. Comparison of the own conformation of the cyclic analogues with their either strong or weak reactivity with the antibodies reveals structural features that may be correlated with the antibody reactivity. Thus, a close structural similarity, particularly a characteristic orientation of the side-chains of residues Lys606, Leu607 and Ile608 in the loop, was found in certain beta(3)-analogues that were better recognised than the parent peptide by anti-peptide mouse monoclonal antibodies and patients' antibodies.


    Organizational Affiliation

    Laboratoire de Chimie Physique Macromoléculaire, Unité Mixte de Recherches 7568 CNRS-INPL, 54000, Nancy, France.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
HIV1 GP41 HSER analogue peptide Ace-Ile-Trp-Gly-Cys-beta3Ser-Gly-Lys-Leu-Ile-Cys-Thr-Thr-Ala
A
14Human immunodeficiency virus type 1 group M subtype BGene Names: env
Find proteins for P12488 (Human immunodeficiency virus type 1 group M subtype B)
Go to UniProtKB:  P12488
Small Molecules
Modified Residues  2 Unique
IDChainsTypeFormula2D DiagramParent
B3S
Query on B3S
A
D-PEPTIDE LINKINGC4 H9 N O3

--

ACE
Query on ACE
A
NON-POLYMERC2 H4 O

--

Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 50 
  • Conformers Submitted: 27 
  • Selection Criteria: target function 
  • Olderado: 1J8N Olderado

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-07-01
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2011-10-05
    Type: Other