SMTL ID : 8h3m.1

Conformation 1 of SARS-CoV-2 Omicron BA.1 Variant Spike protein complexed with MO1 Fab

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-2-mer

Ligands

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

NAG.1: 4 residues within 4Å: Chain A: A.700, E.1066, K.1067, N.1068 Ligand excluded by PLIP NAG.2: 1 residues within 4Å: Chain A: N.1128 Ligand excluded by PLIP NAG.3: 4 residues within 4Å: Chain A: N.1092, T.1094, H.1095, F.1097 Ligand excluded by PLIP NAG.4: 3 residues within 4Å: Chain A: N.613 Chain C: I.828, Q.830 Ligand excluded by PLIP NAG.5: 3 residues within 4Å: Chain A: N.703 Chain C: I.788, Y.790 Ligand excluded by PLIP NAG.6: 2 residues within 4Å: Chain A: N.795, S.797 Ligand excluded by PLIP NAG.7: 2 residues within 4Å: Chain A: N.277, N.279 Ligand excluded by PLIP NAG.8: 5 residues within 4Å: Chain A: F.335, D.336, F.339, N.340, V.364 Ligand excluded by PLIP NAG.9: 3 residues within 4Å: Chain A: N.711, Q.920, Q.1065 Ligand excluded by PLIP NAG.10: 3 residues within 4Å: Chain C: A.700, E.1066, N.1068 Ligand excluded by PLIP NAG.11: 1 residues within 4Å: Chain C: N.1128 Ligand excluded by PLIP NAG.12: 5 residues within 4Å: Chain C: N.1092, T.1094, F.1097, Y.1104, P.1106 Ligand excluded by PLIP NAG.13: 3 residues within 4Å: Chain C: S.702, N.703 Chain D: Y.790 Ligand excluded by PLIP NAG.14: 2 residues within 4Å: Chain C: N.795, S.797 Ligand excluded by PLIP NAG.15: 3 residues within 4Å: Chain C: N.711, Q.920, Q.1065 Ligand excluded by PLIP NAG.16: 4 residues within 4Å: Chain A: Q.889 Chain D: A.700, E.1066, N.1068 Ligand excluded by PLIP NAG.17: 1 residues within 4Å: Chain D: N.1128 Ligand excluded by PLIP NAG.18: 3 residues within 4Å: Chain D: N.1092, H.1095, F.1097 Ligand excluded by PLIP NAG.19: 1 residues within 4Å: Chain D: N.613 Ligand excluded by PLIP NAG.20: 2 residues within 4Å: Chain A: Y.790 Chain D: N.703 Ligand excluded by PLIP NAG.21: 3 residues within 4Å: Chain D: N.795, S.797, Q.798 Ligand excluded by PLIP NAG.22: 3 residues within 4Å: Chain D: N.711, Q.920, Q.1065 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ishimaru, H. et al., Identification and Analysis of Monoclonal Antibodies with Neutralizing Activity against Diverse SARS-CoV-2 Variants. J.Virol. (2023)

Release Date

2023-05-10

Peptides

Spike glycoprotein: ACD
MO1 heavy chain: BE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
B

D
C

B
D

E
H

Spike glycoprotein

MO1 heavy chain

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