SMTL ID : 7can.1

Structure of sybody MR17-K99Y in complex with the SARS-CoV-2 S Receptor-binding domain (RBD)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.94 Å

Oligo State

hetero-1-1-mer

Ligands

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

NAG-NAG-FUC.1: 3 residues within 4Å: Chain B: G.13, N.17, S.45 No protein-ligand interaction detected (PLIP)

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain B: F.16, N.17, A.46, S.47, W.110 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:F.16

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, T. et al., A synthetic nanobody targeting RBD protects hamsters from SARS-CoV-2 infection. Nat Commun (2021)

Release Date

2020-06-24

Peptides

sybody MR17-K99Y: A
Spike protein S1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

sybody MR17-K99Y

Spike protein S1

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