SMTL ID : 6vsj.1

Cryo-electron microscopy structure of mouse coronavirus spike protein complexed with its murine receptor

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-mer

Ligands

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

NAG.1: 6 residues within 4Å: Chain A: Y.151, N.152, V.154, M.156, K.197, N.199 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.152 NAG.2: 3 residues within 4Å: Chain A: T.343, Y.371, N.442 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.371, A:N.442 NAG.3: 5 residues within 4Å: Chain A: N.364, S.366, S.367, R.370, T.573 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.364, A:T.573 NAG.4: 2 residues within 4Å: Chain B: N.55, Y.61 No protein-ligand interaction detected (PLIP) NAG.5: 6 residues within 4Å: Chain C: Y.151, N.152, V.154, M.156, K.197, N.199 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.152 NAG.6: 3 residues within 4Å: Chain C: T.343, Y.371, N.442 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:Y.371, C:N.442 NAG.7: 5 residues within 4Å: Chain C: N.364, S.366, S.367, R.370, T.573 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.364, C:T.573 NAG.8: 2 residues within 4Å: Chain D: N.55, Y.61 No protein-ligand interaction detected (PLIP) NAG.9: 6 residues within 4Å: Chain E: Y.151, N.152, V.154, M.156, K.197, N.199 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:N.152 NAG.10: 3 residues within 4Å: Chain E: T.343, Y.371, N.442 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:Y.371, E:N.442 NAG.11: 5 residues within 4Å: Chain E: N.364, S.366, S.367, R.370, T.573 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:N.364, E:T.573 NAG.12: 2 residues within 4Å: Chain F: N.55, Y.61 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shang, J. et al., Structure of mouse coronavirus spike protein complexed with receptor reveals mechanism for viral entry. Plos Pathog. (2020)

Release Date

2020-03-04

Peptides

Spike glycoprotein: ACE
Carcinoembryonic antigen-related cell adhesion molecule 1: BDF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
B

E
C

B
D

D
E

F
F

Spike glycoprotein

Carcinoembryonic antigen-related cell adhesion molecule 1

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