SMTL ID : 7v20.1

CryoEM structure of del68-76/del679-688 prefusion-stabilized spike

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-trimer

Ligands

9 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.322, Q.571 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 4 residues within 4Å: Chain A: N.698, L.903, Q.907, Q.1052 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 2 residues within 4Å: Chain A: N.782, S.784 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 2 residues within 4Å: Chain A: A.687, N.1055 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 3 residues within 4Å: Chain A: N.1079, H.1082, F.1084 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 3 residues within 4Å: Chain B: N.782, S.784, Q.785 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 3 residues within 4Å: Chain C: N.698, L.903, Q.1052 No protein-ligand interaction detected (PLIP) NAG-NAG.8: 2 residues within 4Å: Chain C: N.782, S.784 No protein-ligand interaction detected (PLIP) NAG-NAG.9: 3 residues within 4Å: Chain C: A.687, E.1053, N.1055 No protein-ligand interaction detected (PLIP)

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

NAG.10: 2 residues within 4Å: Chain A: E.123, N.156 Ligand excluded by PLIP NAG.11: 2 residues within 4Å: Chain A: N.273 Chain C: K.549 Ligand excluded by PLIP NAG.12: 1 residues within 4Å: Chain A: N.594 Ligand excluded by PLIP NAG.13: 2 residues within 4Å: Chain A: N.607, T.609 Ligand excluded by PLIP NAG.14: 1 residues within 4Å: Chain A: N.648 Ligand excluded by PLIP NAG.15: 2 residues within 4Å: Chain A: N.690, G.1112 Ligand excluded by PLIP NAG.16: 1 residues within 4Å: Chain A: N.1115 Ligand excluded by PLIP NAG.17: 3 residues within 4Å: Chain B: N.113, N.116, V.118 Ligand excluded by PLIP NAG.18: 2 residues within 4Å: Chain B: E.123, N.156 Ligand excluded by PLIP NAG.19: 2 residues within 4Å: Chain B: N.271, N.273 Ligand excluded by PLIP NAG.20: 2 residues within 4Å: Chain B: N.322, Q.571 Ligand excluded by PLIP NAG.21: 3 residues within 4Å: Chain B: F.333, N.334, F.365 Ligand excluded by PLIP NAG.22: 1 residues within 4Å: Chain B: N.594 Ligand excluded by PLIP NAG.23: 1 residues within 4Å: Chain B: N.607 Ligand excluded by PLIP NAG.24: 1 residues within 4Å: Chain B: N.648 Ligand excluded by PLIP NAG.25: 3 residues within 4Å: Chain B: N.690, G.1112 Chain C: D.777 Ligand excluded by PLIP NAG.26: 1 residues within 4Å: Chain B: N.698 Ligand excluded by PLIP NAG.27: 3 residues within 4Å: Chain B: N.1079, T.1081, H.1082 Ligand excluded by PLIP NAG.28: 1 residues within 4Å: Chain B: N.1115 Ligand excluded by PLIP NAG.29: 3 residues within 4Å: Chain C: N.271, E.272, N.273 Ligand excluded by PLIP NAG.30: 2 residues within 4Å: Chain C: N.322, Q.571 Ligand excluded by PLIP NAG.31: 2 residues within 4Å: Chain C: F.333, N.334 Ligand excluded by PLIP NAG.32: 1 residues within 4Å: Chain C: N.594 Ligand excluded by PLIP NAG.33: 1 residues within 4Å: Chain C: N.607 Ligand excluded by PLIP NAG.34: 1 residues within 4Å: Chain C: N.648 Ligand excluded by PLIP NAG.35: 3 residues within 4Å: Chain A: D.777 Chain C: N.690, G.1112 Ligand excluded by PLIP NAG.36: 3 residues within 4Å: Chain C: N.1079, T.1081, F.1084 Ligand excluded by PLIP NAG.37: 1 residues within 4Å: Chain C: N.1115 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Du, S. et al., CryoEM structure of del68-76/del679-688 prefusion-stabilized spike. To Be Published

Release Date

2022-08-10

Peptides

Spike glycoprotein: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Spike glycoprotein

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