Biological Assembly 1  

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

Global Symmetry: Cyclic - C3  (3D View)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 21.03 kDa 
• Atom Count: 1500 
• Modelled Residue Count: 177 
• Deposited Residue Count: 177 
• Unique protein chains: 1

2M7W

Independently verified structure of gp41-M-MAT, a membrane associated MPER trimer from HIV-1 gp41

• PDB DOI: 10.2210/pdb2M7W/pdb
• BMRB: 19215

• Classification: VIRAL PROTEIN
• Organism(s): Human immunodeficiency virus 1
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2013-05-01 Released: 2013-05-15 
• Deposition Author(s): Martin, J.W., Reardon, P.N., Sage, H.S., Moses, D.S., Munir, A.S., Haynes, B.F., Spicer, L.D., Donald, B.R.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 200 
• Conformers Submitted: 18 
• Selection Criteria: structures with the least restraint violations 

Literature

Structure of an HIV-1-neutralizing antibody target, the lipid-bound gp41 envelope membrane proximal region trimer.

Reardon, P.N., Sage, H., Dennison, S.M., Martin, J.W., Donald, B.R., Alam, S.M., Haynes, B.F., Spicer, L.D.

(2014) Proc Natl Acad Sci U S A 111: 1391-1396

• PubMed: 24474763 
• DOI: 10.1073/pnas.1309842111
• Primary Citation of Related Structures:  
  2LP7, 2M7W


• PubMed Abstract: 
  

The membrane proximal external region (MPER) of HIV-1 glycoprotein (gp) 41 is involved in viral-host cell membrane fusion. It contains short amino acid sequences that are binding sites for the HIV-1 broadly neutralizing antibodies 2F5, 4E10, and 10E8, making these binding sites important targets for HIV-1 vaccine development. We report a high-resolution structure of a designed MPER trimer assembled on a detergent micelle. The NMR solution structure of this trimeric domain, designated gp41-M-MAT, shows that the three MPER peptides each adopt symmetric α-helical conformations exposing the amino acid side chains of the antibody binding sites. The helices are closely associated at their N termini, bend between the 2F5 and 4E10 epitopes, and gradually separate toward the C termini, where they associate with the membrane. The mAbs 2F5 and 4E10 bind gp41-M-MAT with nanomolar affinities, consistent with the substantial exposure of their respective epitopes in the trimer structure. The traditional structure determination of gp41-M-MAT using the Xplor-NIH protocol was validated by independently determining the structure using the DISCO sparse-data protocol, which exploits geometric arrangement algorithms that guarantee to compute all structures and assignments that satisfy the data.

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Organizational Affiliation: 

Department of Biochemistry, Duke Human Vaccine Institute, Duke Department of Medicine, and Department of Radiology, Duke University School of Medicine, Durham, NC 27710.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Envelope glycoprotein	A, B, C	59	Human immunodeficiency virus 1	Mutation(s): 0
UniProt
Find proteins for M1E1E4 (Human immunodeficiency virus 1) Explore M1E1E4  Go to UniProtKB:  M1E1E4

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 200 
• Conformers Submitted: 18 
• Selection Criteria: structures with the least restraint violations 
• OLDERADO: 2M7W Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2013-05-01 
• Released Date: 2013-05-15 
Deposition Author(s): Martin, J.W., Reardon, P.N., Sage, H.S., Moses, D.S., Munir, A.S., Haynes, B.F., Spicer, L.D., Donald, B.R.

Revision History  

• Version 1.0: 2013-05-15
  Type: Initial release
  
• Version 1.1: 2014-01-22
  Changes: Database references
• Version 1.2: 2014-03-05
  Changes: Database references