SMTL ID : 7kmb.1

ACE2-RBD Focused Refinement Using Symmetry Expansion of Applied C3 for Triple ACE2-bound SARS-CoV-2 Trimer Spike at pH 7.4

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 4 residues within 4Å: Chain A: K.398, S.402, D.525, N.528 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 4 residues within 4Å: Chain B: F.323, G.324, F.327, N.328 No protein-ligand interaction detected (PLIP)

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

NAG.3: 3 residues within 4Å: Chain A: E.294, N.304, M.305 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.304 NAG.4: 2 residues within 4Å: Chain A: D.413, N.414 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:D.413 NAG.5: 4 residues within 4Å: Chain A: Q.63, Q.83, N.85, A.175 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.63 NAG.6: 2 residues within 4Å: Chain A: N.72, T.74 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.72 NAG.7: 4 residues within 4Å: Chain A: N.35, I.36, T.37, V.321 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhou, T. et al., Cryo-EM Structures of SARS-CoV-2 Spike without and with ACE2 Reveal a pH-Dependent Switch to Mediate Endosomal Positioning of Receptor-Binding Domains. Cell Host Microbe (2020)

Release Date

2020-12-09

Peptides

Angiotensin-converting enzyme 2: A
Spike glycoprotein: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
F

B
G

Angiotensin-converting enzyme 2

Spike glycoprotein

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