SMTL ID : 7kqb.1

SARS-CoV-2 spike glycoprotein:Fab 5A6 complex I

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-2-2-mer

Ligands

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

NAG.1: 3 residues within 4Å: Chain A: N.616, T.618, Q.644 Ligand excluded by PLIP NAG.2: 3 residues within 4Å: Chain A: E.132, N.164, N.165 Ligand excluded by PLIP NAG.3: 4 residues within 4Å: Chain A: N.280, E.281, N.282 Chain C: K.558 Ligand excluded by PLIP NAG.4: 5 residues within 4Å: Chain A: N.331, P.579, Q.580, T.581, L.582 Ligand excluded by PLIP NAG.5: 6 residues within 4Å: Chain A: F.338, G.339, F.342, N.343, V.367, L.368 Ligand excluded by PLIP NAG.6: 5 residues within 4Å: Chain A: N.709, I.1130, G.1131 Chain B: I.794, D.796 Ligand excluded by PLIP NAG.7: 5 residues within 4Å: Chain A: T.716, N.717, L.922, Q.926, Q.1071 Ligand excluded by PLIP NAG.8: 4 residues within 4Å: Chain A: N.1098, T.1100, H.1101, F.1103 Ligand excluded by PLIP NAG.9: 1 residues within 4Å: Chain A: N.1134 Ligand excluded by PLIP NAG.10: 3 residues within 4Å: Chain B: E.132, N.164, N.165 Ligand excluded by PLIP NAG.11: 4 residues within 4Å: Chain A: K.558 Chain B: N.280, E.281, N.282 Ligand excluded by PLIP NAG.12: 3 residues within 4Å: Chain B: N.616, T.618, Q.644 Ligand excluded by PLIP NAG.13: 5 residues within 4Å: Chain B: N.709, N.710, I.1130, G.1131 Chain C: D.796 Ligand excluded by PLIP NAG.14: 4 residues within 4Å: Chain B: N.717, L.922, Q.926, Q.1071 Ligand excluded by PLIP NAG.15: 1 residues within 4Å: Chain B: N.1134 Ligand excluded by PLIP NAG.16: 3 residues within 4Å: Chain C: E.132, N.164, N.165 Ligand excluded by PLIP NAG.17: 4 residues within 4Å: Chain B: K.558 Chain C: N.280, E.281, N.282 Ligand excluded by PLIP NAG.18: 7 residues within 4Å: Chain C: F.338, G.339, F.342, N.343, V.367, L.368, F.374 Ligand excluded by PLIP NAG.19: 3 residues within 4Å: Chain C: N.616, T.618, Q.644 Ligand excluded by PLIP NAG.20: 5 residues within 4Å: Chain C: T.716, N.717, L.922, Q.926, Q.1071 Ligand excluded by PLIP NAG.21: 6 residues within 4Å: Chain A: Q.895 Chain C: A.706, A.713, E.1072, K.1073, N.1074 Ligand excluded by PLIP NAG.22: 5 residues within 4Å: Chain C: N.1098, G.1099, T.1100, H.1101, F.1103 Ligand excluded by PLIP NAG.23: 1 residues within 4Å: Chain C: N.1134 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Asarnow, D. et al., Structural insight into SARS-CoV-2 neutralizing antibodies and modulation of syncytia. Cell (2021)

Release Date

2021-05-26

Peptides

Spike glycoprotein: ABC
Fab 5A6 heavy chain: DF
Fab 5A6 light chain: EG

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
H

F
K

E
L

G
J

Spike glycoprotein

Fab 5A6 heavy chain

Fab 5A6 light chain

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