SMTL ID : 6p7h.1

Vaccine-elicited NHP FP-targeting neutralizing antibody DF2F-b.04 in complex with HIV fusion peptide (residue 512-519)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.78 Å

Oligo State

hetero-1-1-mer

Ligands

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

ALA-VAL-GLY-ILE-GLY-ALA-VAL-PHE.1: 24 residues within 4Å: Chain A: H.31, N.33, Y.37, H.39, Y.41, L.51, Y.54, E.55, E.94, T.96, L.97, Q.98, T.99 Chain B: Y.35, Y.54, R.99, D.101, P.102, I.103, S.105, E.108, E.109, F.110, D.111 19 PLIP interactions: 8 interactions with chain B, 11 interactions with chain A Hydrophobic interactions: B:Y.35, B:Y.54, B:D.101, B:I.103, B:I.103, A:L.51, A:Y.54, A:Y.54, A:T.99 Hydrogen bonds: B:P.102, B:I.103, B:D.111, A:H.39, A:Y.41, A:Y.41, A:T.96, A:T.96, A:T.96 Water bridges: A:T.99

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xu, K. et al., Modular recognition of antigens provides a mechanism that improves vaccine-elicited antibody-class frequencies. To Be Published

Release Date

2020-06-10

Peptides

Antibody DF2F-b.04 light chain: A
Antibody DF2F-b.04 heavy chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Antibody DF2F-b.04 light chain

Antibody DF2F-b.04 heavy chain