SMTL ID : 7r11.1

Dissociated S1 domain of Beta Variant SARS-CoV-2 Spike bound to ACE2 (Non-Uniform Refinement)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

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

NAG.1: 2 residues within 4Å: Chain A: F.287, N.434 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.287 Hydrogen bonds: A:E.435 NAG.3: 3 residues within 4Å: Chain A: N.55, T.57, Q.342 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.57, A:Q.342 NAG.4: 3 residues within 4Å: Chain A: Q.83, Q.103, N.105 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.83, A:N.105 NAG.5: 4 residues within 4Å: Chain A: K.315, S.422, S.547, N.548 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.422, A:S.422, A:N.548 NAG.6: 4 residues within 4Å: Chain A: N.92, T.94, V.95, Q.98 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.95 Hydrogen bonds: A:T.94, A:T.94 NAG.7: 2 residues within 4Å: Chain B: G.367, N.371 No protein-ligand interaction detected (PLIP) NAG.8: 2 residues within 4Å: Chain B: N.359, Q.608 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.608

1 x ZN: ZINC ION(Non-covalent)

ZN.2: 3 residues within 4Å: Chain A: H.376, E.377, H.380 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.376

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wrobel, A.G. et al., Evolution of the SARS-CoV-2 spike protein in the human host. Nat Commun (2022)

Release Date

2022-03-09

Peptides

Angiotensin-converting enzyme 2: A
Spike glycoprotein: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
A

Angiotensin-converting enzyme 2

Spike glycoprotein

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