SMTL ID : 7ly0.1

SARS-CoV-2 S/S2M11/S2M28 Local Refinement

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-mer

Ligands

1 x NAG- NAG- MAN- FUC: alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-MAN-FUC.1: 6 residues within 4Å: Chain A: C.15, N.17 Chain C: S.55, N.56, R.57, Y.58 No protein-ligand interaction detected (PLIP)

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

NAG.2: 2 residues within 4Å: Chain A: N.122, A.123 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:A.123 NAG.3: 3 residues within 4Å: Chain A: H.146, N.149, M.153 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.149

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McCallum, M. et al., N-terminal domain antigenic mapping reveals a site of vulnerability for SARS-CoV-2. Cell (2021)

Release Date

2021-04-14

Peptides

Spike glycoprotein: A
S2M28 Fab Light Chain variable region: B
S2M28 Fab Heavy Chain variable region: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
L

C
H

Spike glycoprotein

S2M28 Fab Light Chain variable region

S2M28 Fab Heavy Chain variable region

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