SMTL ID : 7uow.1

SARS-Cov2 S protein structure in complex with neutralizing monoclonal antibody 034_32

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-2-2-mer

Ligands

12 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 2 residues within 4Å: Chain A: N.331, T.581 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 1 residues within 4Å: Chain A: N.1134 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 3 residues within 4Å: Chain A: N.1098, T.1100, F.1103 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 2 residues within 4Å: Chain A: N.717, L.922 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 2 residues within 4Å: Chain A: N.709, G.1131 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 1 residues within 4Å: Chain B: N.1134 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 3 residues within 4Å: Chain B: N.1098, T.1100, H.1101 No protein-ligand interaction detected (PLIP) NAG-NAG.8: 3 residues within 4Å: Chain B: N.717, L.922, Q.926 No protein-ligand interaction detected (PLIP) NAG-NAG.9: 3 residues within 4Å: Chain B: N.801, S.803, Q.804 No protein-ligand interaction detected (PLIP) NAG-NAG.10: 2 residues within 4Å: Chain C: I.1132, N.1134 No protein-ligand interaction detected (PLIP) NAG-NAG.11: 2 residues within 4Å: Chain C: N.1098, F.1103 No protein-ligand interaction detected (PLIP) NAG-NAG.12: 2 residues within 4Å: Chain C: N.331, Q.580 No protein-ligand interaction detected (PLIP)

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

NAG.13: 2 residues within 4Å: Chain A: E.281, N.282 Ligand excluded by PLIP NAG.14: 1 residues within 4Å: Chain A: N.657 Ligand excluded by PLIP NAG.15: 1 residues within 4Å: Chain A: N.616 Ligand excluded by PLIP NAG.16: 2 residues within 4Å: Chain A: N.801, S.803 Ligand excluded by PLIP NAG.17: 2 residues within 4Å: Chain A: A.706, N.1074 Ligand excluded by PLIP NAG.18: 1 residues within 4Å: Chain A: N.61 Ligand excluded by PLIP NAG.19: 1 residues within 4Å: Chain A: N.603 Ligand excluded by PLIP NAG.20: 2 residues within 4Å: Chain A: N.343, S.373 Ligand excluded by PLIP NAG.21: 2 residues within 4Å: Chain B: N.280, N.282 Ligand excluded by PLIP NAG.22: 1 residues within 4Å: Chain B: N.657 Ligand excluded by PLIP NAG.23: 2 residues within 4Å: Chain B: N.616, T.618 Ligand excluded by PLIP NAG.24: 2 residues within 4Å: Chain B: A.706, N.1074 Ligand excluded by PLIP NAG.25: 2 residues within 4Å: Chain B: E.309, N.603 Ligand excluded by PLIP NAG.26: 2 residues within 4Å: Chain B: G.339, N.343 Ligand excluded by PLIP NAG.27: 2 residues within 4Å: Chain B: N.709, G.1131 Ligand excluded by PLIP NAG.28: 3 residues within 4Å: Chain C: N.280, E.281, N.282 Ligand excluded by PLIP NAG.29: 1 residues within 4Å: Chain C: N.657 Ligand excluded by PLIP NAG.30: 2 residues within 4Å: Chain C: N.616, T.618 Ligand excluded by PLIP NAG.31: 1 residues within 4Å: Chain C: N.709 Ligand excluded by PLIP NAG.32: 1 residues within 4Å: Chain C: N.1074 Ligand excluded by PLIP NAG.33: 1 residues within 4Å: Chain C: N.603 Ligand excluded by PLIP NAG.34: 3 residues within 4Å: Chain C: N.717, L.922, Q.926 Ligand excluded by PLIP NAG.35: 2 residues within 4Å: Chain C: N.343, V.367 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Patel, A. et al., Molecular basis of SARS-CoV-2 Omicron variant evasion from shared neutralizing antibody response. Structure (2023)

Release Date

2023-04-19

Peptides

Spike glycoprotein: ABC
Monoclonal antibody 034_32 heavy chain: DF
Monoclonal antibody 034_32 light chain: EG

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
H

F
J

E
I

G
L

Spike glycoprotein

Monoclonal antibody 034_32 heavy chain

Monoclonal antibody 034_32 light chain

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