SMTL ID : 6mqr.1

Vaccine-elicited NHP FP-targeting neutralizing antibody 0PV-a.01 in complex with FP (residue 512-519)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.45 Å

Oligo State

hetero-1-1-mer

Ligands

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

ALA-VAL-GLY-ILE-GLY-ALA-VAL-PHE.1: 18 residues within 4Å: Chain A: Y.33, F.35, Y.54, N.56, E.101, R.102, V.103, V.104, H.106 Chain B: S.32, S.34, R.46, H.49, Y.91, E.92, D.93, F.94, L.96 17 PLIP interactions: 9 interactions with chain A, 8 interactions with chain B Hydrophobic interactions: A:Y.33, A:Y.54, A:E.101, B:H.49, B:Y.91, B:Y.91, B:F.94, B:L.96 Hydrogen bonds: A:Y.54, A:V.104, A:H.106, B:S.32, B:Y.91, B:E.92 Water bridges: A:Y.54, A:A.105 pi-Stacking: A:Y.54

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 3 residues within 4Å: Chain A: A.23, K.78, H.80 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:H.80 SO4.3: 4 residues within 4Å: Chain A: V.104 Chain B: H.49, H.50, T.53 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.53, B:T.53 Salt bridges: B:H.49

1 x CA: CALCIUM ION(Non-covalent)

CA.4: 5 residues within 4Å: Chain A: G.173, H.175, T.194 Chain B: N.137, N.138 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.175

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kong, R. et al., Antibody Lineages with Vaccine-Induced Antigen-Binding Hotspots Develop Broad HIV Neutralization. Cell (2019)

Release Date

2019-07-31

Peptides

antibody 0PV-A.01 Fab heavy chain: A
antibody 0PV-A.01 Fab light chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

antibody 0PV-A.01 Fab heavy chain

antibody 0PV-A.01 Fab light chain