SMTL ID : 7n8i.1

SARS-CoV-2 S (B.1.429 / epsilon variant) + S2M11 + S2L20 (Local Refinement of the NTD/S2L20)

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-mer

Ligands

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

NAG.1: 4 residues within 4Å: Chain C: N.122, A.123, T.124, V.127 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:A.123 Hydrogen bonds: C:T.124 NAG.2: 2 residues within 4Å: Chain C: F.59, N.61 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.61 NAG.3: 3 residues within 4Å: Chain B: R.103, Y.104 Chain C: N.234 2 PLIP interactions: 1 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:N.234, B:R.103 NAG.4: 1 residues within 4Å: Chain C: N.165 No protein-ligand interaction detected (PLIP) NAG.5: 3 residues within 4Å: Chain C: N.280, E.281, N.282 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:E.281, C:N.282

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McCallum, M. et al., SARS-CoV-2 immune evasion by the B.1.427/B.1.429 variant of concern. Science (2021)

Release Date

2021-07-14

Peptides

S2L20 Fab Light Chain Variable Region: A
S2L20 Fab Heavy Chain Variable Region: B
Spike glycoprotein: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
H

C
A

S2L20 Fab Light Chain Variable Region

S2L20 Fab Heavy Chain Variable Region

Spike glycoprotein

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