SMTL ID : 8g8d.1 (1 other biounit)

Crystal structure of DH1346 Fab in complex with HIV proximal MPER peptide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.02 Å

Oligo State

hetero-1-1-1-mer

Ligands

6 x NA: SODIUM ION(Non-functional Binders)

NA.1: 6 residues within 4Å: Chain A: W.50, I.51, N.52, N.57, P.58, T.59 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.52, A:N.57 NA.2: 5 residues within 4Å: Chain A: S.7, G.8, E.10, V.20, T.121 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.10, A:E.10 NA.3: 3 residues within 4Å: Chain A: E.10, L.11, K.12 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.10, A:L.11 NA.4: 4 residues within 4Å: Chain B: L.4, T.5, Q.23, G.24 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.5, B:T.5 NA.5: 6 residues within 4Å: Chain A: F.180, P.181 Chain B: T.165, A.177, S.178, Y.180 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:T.165, B:S.178, A:P.181 Water bridges: B:S.178 NA.6: 3 residues within 4Å: Chain B: E.186, Q.187, S.190 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.186 Water bridges: B:S.190

1 x F: FLUORIDE ION(Non-covalent)

F.7: 8 residues within 4Å: Chain A: G.108, Y.109, F.110 Chain B: Y.30, R.90 Chain C: D.12, S.16, N.19 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Williams, W.B. et al., Vaccine induction of heterologous HIV-1-neutralizing antibody B cell lineages in humans. Cell (2024)

Release Date

2024-05-22

Peptides

DH1346 heavy chain: A
DH1346 light chain: B
gp41 MPER peptide: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
H

B
L

C
P

DH1346 heavy chain

DH1346 light chain

gp41 MPER peptide

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