SMTL ID : 6m39.1

Cryo-EM structure of SADS-CoV spike

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-trimer

Ligands

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

NAG.1: 3 residues within 4Å: Chain A: N.637, Q.640, N.765 Ligand excluded by PLIP NAG.2: 5 residues within 4Å: Chain A: D.554, H.555, Q.556, N.907, N.908 Ligand excluded by PLIP NAG.3: 5 residues within 4Å: Chain A: Y.548, I.910, T.911, A.939, N.940 Ligand excluded by PLIP NAG.4: 2 residues within 4Å: Chain A: Y.943, N.956 Ligand excluded by PLIP NAG.5: 4 residues within 4Å: Chain A: N.545, E.546, N.970 Chain B: L.753 Ligand excluded by PLIP NAG.6: 2 residues within 4Å: Chain A: N.35, K.36 Ligand excluded by PLIP NAG.7: 3 residues within 4Å: Chain A: D.922, T.973, N.975 Ligand excluded by PLIP NAG.8: 2 residues within 4Å: Chain A: C.134, N.137 Ligand excluded by PLIP NAG.9: 2 residues within 4Å: Chain A: N.341 Chain C: K.338 Ligand excluded by PLIP NAG.10: 2 residues within 4Å: Chain A: A.501, N.503 Ligand excluded by PLIP NAG.11: 3 residues within 4Å: Chain A: N.288, T.290, T.291 Ligand excluded by PLIP NAG.12: 2 residues within 4Å: Chain A: N.258, L.434 Ligand excluded by PLIP NAG.13: 2 residues within 4Å: Chain A: N.22, S.209 Ligand excluded by PLIP NAG.14: 1 residues within 4Å: Chain A: N.455 Ligand excluded by PLIP NAG.15: 5 residues within 4Å: Chain A: Q.456, F.458, S.484, F.496, N.497 Ligand excluded by PLIP NAG.16: 2 residues within 4Å: Chain A: I.472, N.486 Ligand excluded by PLIP NAG.17: 2 residues within 4Å: Chain A: N.87, Q.301 Ligand excluded by PLIP NAG.18: 3 residues within 4Å: Chain A: V.507, N.508, T.778 Ligand excluded by PLIP NAG.19: 3 residues within 4Å: Chain B: N.637, Q.640, N.765 Ligand excluded by PLIP NAG.20: 5 residues within 4Å: Chain B: D.554, H.555, Q.556, N.907, N.908 Ligand excluded by PLIP NAG.21: 5 residues within 4Å: Chain B: Y.548, I.910, T.911, A.939, N.940 Ligand excluded by PLIP NAG.22: 2 residues within 4Å: Chain B: Y.943, N.956 Ligand excluded by PLIP NAG.23: 4 residues within 4Å: Chain B: N.545, E.546, N.970 Chain C: L.753 Ligand excluded by PLIP NAG.24: 2 residues within 4Å: Chain B: N.35, K.36 Ligand excluded by PLIP NAG.25: 3 residues within 4Å: Chain B: D.922, T.973, N.975 Ligand excluded by PLIP NAG.26: 2 residues within 4Å: Chain B: C.134, N.137 Ligand excluded by PLIP NAG.27: 2 residues within 4Å: Chain A: K.338 Chain B: N.341 Ligand excluded by PLIP NAG.28: 2 residues within 4Å: Chain B: A.501, N.503 Ligand excluded by PLIP NAG.29: 3 residues within 4Å: Chain B: N.288, T.290, T.291 Ligand excluded by PLIP NAG.30: 2 residues within 4Å: Chain B: N.258, L.434 Ligand excluded by PLIP NAG.31: 2 residues within 4Å: Chain B: N.22, S.209 Ligand excluded by PLIP NAG.32: 1 residues within 4Å: Chain B: N.455 Ligand excluded by PLIP NAG.33: 5 residues within 4Å: Chain B: Q.456, F.458, S.484, F.496, N.497 Ligand excluded by PLIP NAG.34: 2 residues within 4Å: Chain B: I.472, N.486 Ligand excluded by PLIP NAG.35: 2 residues within 4Å: Chain B: N.87, Q.301 Ligand excluded by PLIP NAG.36: 3 residues within 4Å: Chain B: V.507, N.508, T.778 Ligand excluded by PLIP NAG.37: 3 residues within 4Å: Chain C: N.637, Q.640, N.765 Ligand excluded by PLIP NAG.38: 5 residues within 4Å: Chain C: D.554, H.555, Q.556, N.907, N.908 Ligand excluded by PLIP NAG.39: 5 residues within 4Å: Chain C: Y.548, I.910, T.911, A.939, N.940 Ligand excluded by PLIP NAG.40: 2 residues within 4Å: Chain C: Y.943, N.956 Ligand excluded by PLIP NAG.41: 4 residues within 4Å: Chain A: L.753 Chain C: N.545, E.546, N.970 Ligand excluded by PLIP NAG.42: 2 residues within 4Å: Chain C: N.35, K.36 Ligand excluded by PLIP NAG.43: 3 residues within 4Å: Chain C: D.922, T.973, N.975 Ligand excluded by PLIP NAG.44: 2 residues within 4Å: Chain C: C.134, N.137 Ligand excluded by PLIP NAG.45: 2 residues within 4Å: Chain B: K.338 Chain C: N.341 Ligand excluded by PLIP NAG.46: 2 residues within 4Å: Chain C: A.501, N.503 Ligand excluded by PLIP NAG.47: 3 residues within 4Å: Chain C: N.288, T.290, T.291 Ligand excluded by PLIP NAG.48: 2 residues within 4Å: Chain C: N.258, L.434 Ligand excluded by PLIP NAG.49: 2 residues within 4Å: Chain C: N.22, S.209 Ligand excluded by PLIP NAG.50: 1 residues within 4Å: Chain C: N.455 Ligand excluded by PLIP NAG.51: 5 residues within 4Å: Chain C: Q.456, F.458, S.484, F.496, N.497 Ligand excluded by PLIP NAG.52: 2 residues within 4Å: Chain C: I.472, N.486 Ligand excluded by PLIP NAG.53: 2 residues within 4Å: Chain C: N.87, Q.301 Ligand excluded by PLIP NAG.54: 3 residues within 4Å: Chain C: V.507, N.508, T.778 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Guan, H. et al., Cryo-electron Microscopy Structure of the Swine Acute Diarrhea Syndrome Coronavirus Spike Glycoprotein Provides Insights into Evolution of Unique Coronavirus Spike Proteins. J.Virol. (2020)

Release Date

2020-08-26

Peptides

Spike glycoprotein: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Spike glycoprotein