Biological Assembly 1  

 3D View: Structure | 1D-3D View | Validation Report | Predict Membrane 

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 4.62 kDa 
• Atom Count: 328 
• Modelled Residue Count: 36 
• Deposited Residue Count: 36 
• Unique protein chains: 1

2NCS

NMR assignment and structure of a peptide derived from the membrane proximal external region of HIV-1 gp41 in the presence of dodecylphosphocholine micelles

• PDB DOI: 10.2210/pdb2NCS/pdb
• BMRB: 26034

• Classification: VIRAL PROTEIN
• Organism(s): Human immunodeficiency virus 1
• Mutation(s): No 
• Membrane Protein: Yes  OPM


• Deposited: 2016-04-14 Released: 2017-02-22 
• Deposition Author(s): Jimenez, M., Nieva, J.L., Rujas, E., Partida-Hanon, A., Bruix, M.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 200 
• Conformers Submitted: 20 
• Selection Criteria: target function 

Literature

Structural basis for broad neutralization of HIV-1 through the molecular recognition of 10E8 helical epitope at the membrane interface.

Rujas, E., Caaveiro, J.M., Partida-Hanon, A., Gulzar, N., Morante, K., Apellaniz, B., Garcia-Porras, M., Bruix, M., Tsumoto, K., Scott, J.K., Jimenez, M.A., Nieva, J.L.

(2016) Sci Rep 6: 38177-38177

• PubMed: 27905530 
• DOI: 10.1038/srep38177
• Primary Citation of Related Structures:  
  2NCS, 2NCT, 5GHW


• PubMed Abstract: 
  

The mechanism by which the HIV-1 MPER epitope is recognized by the potent neutralizing antibody 10E8 at membrane interfaces remains poorly understood. To solve this problem, we have optimized a 10E8 peptide epitope and analyzed the structure and binding activities of the antibody in membrane and membrane-like environments. The X-ray crystal structure of the Fab-peptide complex in detergents revealed for the first time that the epitope of 10E8 comprises a continuous helix spanning the gp41 MPER/transmembrane domain junction (MPER-N-TMD; Env residues 671-687). The MPER-N-TMD helix projects beyond the tip of the heavy-chain complementarity determining region 3 loop, indicating that the antibody sits parallel to the plane of the membrane in binding the native epitope. Biophysical, biochemical and mutational analyses demonstrated that strengthening the affinity of 10E8 for the TMD helix in a membrane environment, correlated with its neutralizing potency. Our research clarifies the molecular mechanisms underlying broad neutralization of HIV-1 by 10E8, and the structure of its natural epitope. The conclusions of our research will guide future vaccine-design strategies targeting MPER.

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Organizational Affiliation: 

Biophysics Unit (CSIC, UPV/EHU) and Department of Biochemistry and Molecular Biology, University of the Basque Country, P.O. Box 644, 48080 Bilbao, Spain.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Envelope glycoprotein gp41	A	36	Human immunodeficiency virus 1	Mutation(s): 0  Gene Names: env Membrane Entity: Yes
UniProt
Find proteins for Q66X49 (Human immunodeficiency virus 1) Explore Q66X49  Go to UniProtKB:  Q66X49

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 200 
• Conformers Submitted: 20 
• Selection Criteria: target function 
• OLDERADO: 2NCS Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2016-04-14 
• Released Date: 2017-02-22 
Deposition Author(s): Jimenez, M., Nieva, J.L., Rujas, E., Partida-Hanon, A., Bruix, M.

Revision History  

• Version 1.0: 2017-02-22
  Type: Initial release