SMTL ID : 6cdm.1 (1 other biounit)

Structure of vaccine-elicited HIV-1 neutralizing antibody vFP7.04 in complex with HIV-1 fusion peptide residue 512-519

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.41 Å

Oligo State

hetero-1-1-mer

Ligands

1 x ALA- VAL- GLY- ILE- GLY- ALA: HIV fusion peptide (512-519)(Non-covalent)

ALA-VAL-GLY-ILE-GLY-ALA.1: 17 residues within 4Å: Chain A: E.33, W.47, A.50, V.52, F.57, T.58, A.59, L.99, L.101, Y.102, W.103, Y.104 Chain B: Y.31, Y.37, E.39, G.96, Y.101 18 PLIP interactions: 10 interactions with chain A, 8 interactions with chain B Hydrophobic interactions: A:W.47, A:V.52, A:F.57, A:F.57, A:L.99, A:L.101, B:Y.31, B:Y.31, B:Y.37, B:Y.101 Hydrogen bonds: A:E.33, A:E.33, A:Y.102, B:E.39, B:G.96, B:Y.101 Water bridges: A:E.33, B:Y.101

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xu, K. et al., Epitope-based vaccine design yields fusion peptide-directed antibodies that neutralize diverse strains of HIV-1. Nat. Med. (2018)

Release Date

2018-05-16

Peptides

vFP7.04 heavy chain: A
vFP7.04 light chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

vFP7.04 heavy chain

vFP7.04 light chain

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