SMTL ID : 8xal.1

Cryo-EM structure of SARS-CoV-2 S-BQ.1 in complex with ACE2

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-2-mer

Ligands

1 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 D: N.90, T.92 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:T.92

31 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)(Post Translational Modification)(Non-functional Binders)

NAG.2: 3 residues within 4Å: Chain A: Y.25, N.27, S.57 Ligand excluded by PLIP NAG.3: 1 residues within 4Å: Chain A: N.160 Ligand excluded by PLIP NAG.4: 2 residues within 4Å: Chain A: E.276, N.277 Ligand excluded by PLIP NAG.5: 2 residues within 4Å: Chain A: N.326, T.576 Ligand excluded by PLIP NAG.6: 3 residues within 4Å: Chain A: N.704 Chain B: I.789, Y.791 Ligand excluded by PLIP NAG.7: 3 residues within 4Å: Chain A: N.712, Q.921, Q.1066 Ligand excluded by PLIP NAG.8: 2 residues within 4Å: Chain A: A.701, N.1069 Ligand excluded by PLIP NAG.9: 3 residues within 4Å: Chain A: N.1093, T.1095, F.1098 Ligand excluded by PLIP NAG.10: 3 residues within 4Å: Chain A: C.1077, G.1080, N.1129 Ligand excluded by PLIP NAG.11: 1 residues within 4Å: Chain A: N.338 Ligand excluded by PLIP NAG.12: 2 residues within 4Å: Chain B: Y.25, N.58 Ligand excluded by PLIP NAG.13: 1 residues within 4Å: Chain B: N.160 Ligand excluded by PLIP NAG.14: 1 residues within 4Å: Chain B: N.277 Ligand excluded by PLIP NAG.15: 2 residues within 4Å: Chain B: N.326, T.328 Ligand excluded by PLIP NAG.16: 3 residues within 4Å: Chain B: N.704 Chain C: I.789, Y.791 Ligand excluded by PLIP NAG.17: 2 residues within 4Å: Chain B: N.712, Q.921 Ligand excluded by PLIP NAG.18: 3 residues within 4Å: Chain B: S.703, S.706, N.1069 Ligand excluded by PLIP NAG.19: 3 residues within 4Å: Chain B: N.1093, H.1096, F.1098 Ligand excluded by PLIP NAG.20: 2 residues within 4Å: Chain B: C.1077, N.1129 Ligand excluded by PLIP NAG.21: 2 residues within 4Å: Chain C: Y.25, N.58 Ligand excluded by PLIP NAG.22: 2 residues within 4Å: Chain B: K.553 Chain C: N.277 Ligand excluded by PLIP NAG.23: 3 residues within 4Å: Chain A: I.789, Y.791 Chain C: N.704 Ligand excluded by PLIP NAG.24: 4 residues within 4Å: Chain C: N.712, L.917, Q.921, Q.1066 Ligand excluded by PLIP NAG.25: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP NAG.26: 4 residues within 4Å: Chain C: N.1093, T.1095, H.1096, F.1098 Ligand excluded by PLIP NAG.27: 1 residues within 4Å: Chain C: N.1129 Ligand excluded by PLIP NAG.28: 2 residues within 4Å: Chain D: N.432, E.433 Ligand excluded by PLIP NAG.29: 5 residues within 4Å: Chain D: T.78, Q.81, Q.101, N.103, V.107 Ligand excluded by PLIP NAG.30: 1 residues within 4Å: Chain D: N.322 Ligand excluded by PLIP NAG.31: 2 residues within 4Å: Chain D: T.52, N.53 Ligand excluded by PLIP NAG.32: 3 residues within 4Å: Chain D: S.420, S.545, N.546 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chang, Y.H. et al., Functional and structural investigation of a broadly neutralizing SARS-CoV-2 antibody. JCI Insight (2024)

Release Date

2025-01-22

Peptides

Spike glycoprotein: ABC
Angiotensin-converting enzyme 2,Green fluorescent protein (Fragment): DE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
I

E
J

Spike glycoprotein

Angiotensin-converting enzyme 2,Green fluorescent protein (Fragment)

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