SMTL ID : 7lwv.1

UK (B.1.1.7) SARS-CoV-2 spike protein variant (S-GSAS-B.1.1.7) in the 1-RBD-up conformation

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

homo-trimer

Ligands

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

NAG.1: 2 residues within 4Å: Chain A: Y.28, N.61 Ligand excluded by PLIP NAG.2: 4 residues within 4Å: Chain A: T.106, N.231, T.233 Chain C: K.459 Ligand excluded by PLIP NAG.3: 3 residues within 4Å: Chain A: N.277, E.278, N.279 Ligand excluded by PLIP NAG.4: 3 residues within 4Å: Chain A: N.613, T.615, Q.641 Ligand excluded by PLIP NAG.5: 4 residues within 4Å: Chain A: N.714, L.919, Q.923, Q.1068 Ligand excluded by PLIP NAG.6: 3 residues within 4Å: Chain A: N.798, S.800, Q.801 Ligand excluded by PLIP NAG.7: 3 residues within 4Å: Chain A: A.703, E.1069, N.1071 Ligand excluded by PLIP NAG.8: 4 residues within 4Å: Chain A: N.1095, T.1097, H.1098, F.1100 Ligand excluded by PLIP NAG.9: 1 residues within 4Å: Chain A: N.1131 Ligand excluded by PLIP NAG.10: 2 residues within 4Å: Chain A: N.328, Q.577 Ligand excluded by PLIP NAG.11: 2 residues within 4Å: Chain B: Y.28, N.61 Ligand excluded by PLIP NAG.12: 5 residues within 4Å: Chain B: V.118, N.120, T.122, N.123, V.125 Ligand excluded by PLIP NAG.13: 2 residues within 4Å: Chain B: T.106, N.231 Ligand excluded by PLIP NAG.14: 3 residues within 4Å: Chain B: N.328, P.576, Q.577 Ligand excluded by PLIP NAG.15: 3 residues within 4Å: Chain B: N.613, T.615, Q.641 Ligand excluded by PLIP NAG.16: 4 residues within 4Å: Chain B: N.714, L.919, Q.923, Q.1068 Ligand excluded by PLIP NAG.17: 3 residues within 4Å: Chain B: N.798, S.800, Q.801 Ligand excluded by PLIP NAG.18: 3 residues within 4Å: Chain B: A.703, E.1069, N.1071 Ligand excluded by PLIP NAG.19: 1 residues within 4Å: Chain B: N.1131 Ligand excluded by PLIP NAG.20: 1 residues within 4Å: Chain B: N.279 Ligand excluded by PLIP NAG.21: 3 residues within 4Å: Chain B: N.1095, H.1098, F.1100 Ligand excluded by PLIP NAG.22: 2 residues within 4Å: Chain C: N.120, V.125 Ligand excluded by PLIP NAG.23: 2 residues within 4Å: Chain C: N.277, N.279 Ligand excluded by PLIP NAG.24: 3 residues within 4Å: Chain C: N.328, P.576, Q.577 Ligand excluded by PLIP NAG.25: 3 residues within 4Å: Chain C: F.335, G.336, N.340 Ligand excluded by PLIP NAG.26: 2 residues within 4Å: Chain C: N.613, Q.641 Ligand excluded by PLIP NAG.27: 1 residues within 4Å: Chain C: N.654 Ligand excluded by PLIP NAG.28: 3 residues within 4Å: Chain C: N.714, Q.923, Q.1068 Ligand excluded by PLIP NAG.29: 3 residues within 4Å: Chain C: N.798, S.800, Q.801 Ligand excluded by PLIP NAG.30: 4 residues within 4Å: Chain A: Q.892 Chain C: A.703, E.1069, N.1071 Ligand excluded by PLIP NAG.31: 4 residues within 4Å: Chain C: N.1095, T.1097, H.1098, F.1100 Ligand excluded by PLIP NAG.32: 1 residues within 4Å: Chain C: N.1131 Ligand excluded by PLIP NAG.33: 2 residues within 4Å: Chain C: Y.28, N.61 Ligand excluded by PLIP NAG.34: 2 residues within 4Å: Chain C: G.229, N.231 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gobeil, S.M. et al., Effect of natural mutations of SARS-CoV-2 on spike structure, conformation, and antigenicity. Science (2021)

Release Date

2021-03-31

Peptides

Spike glycoprotein: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Spike glycoprotein

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