SMTL ID : 6oej.2 (1 other biounit)

CRYSTAL STRUCTURE OF THE NON-NEUTRALIZING AND ADCC-POTENT ANTIBODY C11 IN COMPLEX WITH HIV-1 CLADE A/E GP120

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.45 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x NAG- NAG- BMA- FUC: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-FUC.1: 4 residues within 4Å: Chain B: S.30, S.31, N.53, Q.101 No protein-ligand interaction detected (PLIP)

11 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.2: 3 residues within 4Å: Chain A: N.58, T.60, K.137 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.60, A:K.137 NAG.3: 5 residues within 4Å: Chain A: N.131, T.133, E.172, L.174, H.233 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.174 Hydrogen bonds: A:N.131 NAG.4: 3 residues within 4Å: Chain A: N.126, K.128, N.138 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.128, A:K.128, A:N.138 NAG.5: 10 residues within 4Å: Chain A: P.109, V.151, L.158, N.159, F.256, N.257, R.259, C.319, V.320, S.321 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:V.151, A:L.158, A:F.256 Hydrogen bonds: A:S.321, A:S.321 NAG.6: 3 residues within 4Å: Chain A: N.173, N.176, N.177 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.176, A:N.177 NAG.7: 3 residues within 4Å: Chain A: I.167, N.186, Q.225 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:I.167 NAG.8: 5 residues within 4Å: Chain A: N.192, T.194, E.213, K.316, N.318 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.192, A:T.194, A:K.316, A:N.318 NAG.9: 4 residues within 4Å: Chain A: N.215, T.217, K.218, T.287 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.215 NAG.10: 5 residues within 4Å: Chain A: L.249, T.252, M.253, N.266, T.268 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.249 Hydrogen bonds: A:T.268 NAG.11: 2 residues within 4Å: Chain A: N.272, T.274 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:T.274 Hydrogen bonds: A:T.274, A:T.274 NAG.12: 3 residues within 4Å: Chain A: S.188, E.190, N.322 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.188, A:E.190

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tolbert, W.D. et al., Recognition Patterns of the C1/C2 Epitopes Involved in Fc-Mediated Response in HIV-1 Natural Infection and the RV114 Vaccine Trial. Mbio (2020)

Release Date

2020-07-15

Peptides

clade A/E 93TH057 HIV-1 gp120 core: A
C11 Fab heavy chain: B
C11 Fab light chain: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

clade A/E 93TH057 HIV-1 gp120 core

C11 Fab heavy chain

C11 Fab light chain

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