1I5X | pdb_00001i5x

HIV-1 GP41 CORE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 
    0.222 (Depositor) 
  • R-Value Work: 
    0.179 (Depositor) 
  • R-Value Observed: 
    0.179 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 1I5X

This is version 1.4 of the entry. See complete history

Literature

Structural and functional analysis of interhelical interactions in the human immunodeficiency virus type 1 gp41 envelope glycoprotein by alanine-scanning mutagenesis.

Lu, M.Stoller, M.O.Wang, S.Liu, J.Fagan, M.B.Nunberg, J.H.

(2001) J Virol 75: 11146-11156

  • DOI: https://doi.org/10.1128/JVI.75.22.11146-11156.2001
  • Primary Citation Related Structures: 
    1I5X, 1I5Y

  • PubMed Abstract: 

    Membrane fusion by human immunodeficiency virus type 1 (HIV-1) is promoted by the refolding of the viral envelope glycoprotein into a fusion-active conformation. The structure of the gp41 ectodomain core in its fusion-active state is a trimer of hairpins in which three antiparallel carboxyl-terminal helices pack into hydrophobic grooves on the surface of an amino-terminal trimeric coiled coil. In an effort to identify amino acid residues in these grooves that are critical for gp41 activation, we have used alanine-scanning mutagenesis to investigate the importance of individual side chains in determining the biophysical properties of the gp41 core and the membrane fusion activity of the gp120-gp41 complex. Alanine substitutions at Leu-556, Leu-565, Val-570, Gly-572, and Arg-579 positions severely impaired membrane fusion activity in envelope glycoproteins that were for the most part normally expressed. Whereas alanine mutations at Leu-565 and Val-570 destabilized the trimer-of-hairpins structure, mutations at Gly-572 and Arg-579 led to the formation of a stable gp41 core. Our results suggest that the Leu-565 and Val-570 residues are important determinants of conserved packing interactions between the amino- and carboxyl-terminal helices of gp41. We propose that the high degree of sequence conservation at Gly-572 and Arg-579 may result from selective pressures imposed by prefusogenic conformations of the HIV-1 envelope glycoprotein. Further analysis of the gp41 activation process may elucidate targets for antiviral intervention.


  • Organizational Affiliation
    • Department of Biochemistry, Weill Medical College of Cornell University, New York, New York 10021, USA. mlu@med.cornell.edu

Macromolecule Content 

  • Total Structure Weight: 7.89 kDa 
  • Atom Count: 577 
  • Modeled Residue Count: 61 
  • Deposited Residue Count: 68 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
TRANSMEMBRANE GLYCOPROTEIN (GP41)68Human immunodeficiency virus 1Mutation(s): 0 
UniProt
Find proteins for Q76270 (Human immunodeficiency virus type 1)
Explore Q76270 
Go to UniProtKB:  Q76270
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ76270
Sequence Annotations
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Reference Sequence

Small Molecules

Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
SO4

Query on SO4



Download:Ideal Coordinates CCD File
B [auth A]SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free:  0.222 (Depositor) 
  • R-Value Work:  0.179 (Depositor) 
  • R-Value Observed: 0.179 (Depositor) 
Space Group: H 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 51.252α = 90
b = 51.252β = 90
c = 59.873γ = 120
Software Package:
Software NamePurpose
AMoREphasing
CNSrefinement
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

  • Released Date: 2002-09-10 
  • Deposition Author(s): Liu, J., Lu, M.

Revision History  (Full details and data files)

  • Version 1.0: 2002-09-10
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Derived calculations, Version format compliance
  • Version 1.3: 2011-11-16
    Changes: Atomic model
  • Version 1.4: 2023-08-09
    Changes: Data collection, Database references, Derived calculations, Refinement description