SMTL ID : 7n8q.1 (1 other biounit)

Rhesusized RV305 DH677.3 Fab bound to Clade A/E 93TH057 HIV-1 gp120 core.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

hetero-1-1-1-1-mer

Ligands

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

NAG.1: 4 residues within 4Å: Chain A: N.120, T.122, P.124, S.160 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.120, A:P.124 NAG.2: 2 residues within 4Å: Chain A: N.115, N.127 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.115 NAG.3: 10 residues within 4Å: Chain A: F.96, D.97, P.98, K.138, V.140, N.148, N.246, C.308, V.309, S.310 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.140 Hydrogen bonds: A:K.138, A:V.309, A:S.310 NAG.4: 3 residues within 4Å: Chain A: N.162, T.164, N.165 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.164 NAG.5: 6 residues within 4Å: Chain A: E.154, E.155, I.156, N.175, Q.214, K.218 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.156, A:I.156, A:N.175 NAG.6: 5 residues within 4Å: Chain A: N.181, E.202, K.305, N.307, V.309 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:V.309 Hydrogen bonds: A:N.181, A:K.305, A:K.305, A:N.307 NAG.7: 2 residues within 4Å: Chain A: N.204, K.207 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.204, A:K.207 NAG.8: 2 residues within 4Å: Chain A: N.255, T.257 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.255 NAG.9: 3 residues within 4Å: Chain A: L.151, S.177, N.311 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.177

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tolbert, W.D. et al., Structure and Fc-Effector Function of Rhesusized Variants of Human Anti-HIV-1 IgG1s. Front Immunol (2021)

Release Date

2022-04-06

Peptides

clade A/E 93TH057 HIV-1 gp120 core: A
M48U1 CD4 MIMETIC PEPTIDE: B
Rhesusized DH677.3 FAB HEAVY CHAIN: C
Rhesusized DH677.3 FAB LIGHT CHAIN: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

B
N

C
H

D
L

clade A/E 93TH057 HIV-1 gp120 core

M48U1 CD4 MIMETIC PEPTIDE

Rhesusized DH677.3 FAB HEAVY CHAIN

Rhesusized DH677.3 FAB LIGHT CHAIN

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