SMTL ID : 8jag.1

Cryo-EM structure of SARS-CoV-1 RBD in complex with W328-6H2 (local refinement)

Coordinates

PDB Format Compare

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 A: N.330 Chain B: Q.1, L.95 Chain C: S.61 No protein-ligand interaction detected (PLIP) NAG.2: 3 residues within 4Å: Chain A: G.225, I.226, N.227 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.227, A:N.227 NAG.3: 3 residues within 4Å: Chain A: D.267, E.268, N.269 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.267, A:E.268 NAG.4: 4 residues within 4Å: Chain A: Y.778, N.783, S.785, Q.786 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.778 Hydrogen bonds: A:S.785 NAG.5: 2 residues within 4Å: Chain A: Q.32, N.65 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:N.65 Hydrogen bonds: A:Q.32, A:Q.32

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nan, X.Y. et al., Cryo-EM structure of SARS-CoV-1 2p RBD in complex with W328-6H2 ( local refinement). To Be Published

Release Date

2024-12-18

Peptides

Spike glycoprotein: A
H chain of 6H2 Fab region: B
L chain of 6H2 Fab region: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
H

C
L

Spike glycoprotein

H chain of 6H2 Fab region

L chain of 6H2 Fab region

Related Entries With Identical Sequence