SMTL ID : 7lo4.1

SARS-CoV-2 spike receptor-binding domain with a G485R mutation in complex with human ACE2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.47 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: 6 residues within 4Å: Chain A: T.60, Q.63, Q.83, N.85, S.88, H.177 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.88

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

NAG.2: 3 residues within 4Å: Chain A: N.35, T.37, Q.322 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.35 NAG.3: 2 residues within 4Å: Chain A: K.8, N.72 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.8, A:N.72 NAG.4: 5 residues within 4Å: Chain A: H.399, S.402, D.525, S.527, N.528 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.402, A:S.402, A:N.528 NAG.9: 4 residues within 4Å: Chain B: G.7, F.10, N.11, L.36 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:F.10, B:L.36 Hydrogen bonds: B:N.11

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 3 residues within 4Å: Chain A: D.332, G.334, R.375 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.332, A:R.375 Water bridges: A:D.332 EDO.6: 3 residues within 4Å: Chain A: E.220, G.587, W.588 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.220, A:E.220, A:W.588, A:W.588 EDO.7: 7 residues within 4Å: Chain A: M.456, K.457, W.460, E.471, P.474, H.475, Y.595 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:M.456, A:E.471, A:H.475, A:Y.595, A:Y.595

1 x ZN: ZINC ION(Non-covalent)

ZN.8: 4 residues within 4Å: Chain A: H.356, E.357, H.360, E.384 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.356, A:H.360, A:E.384, A:E.384

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Weekley, C.M. et al., SARS-CoV-2 Spike receptor-binding domain with a G485R mutation in complex with human ACE2. Biorxiv (2021)

Release Date

2021-03-31

Peptides

Processed angiotensin-converting enzyme 2: A
Spike protein S1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Processed angiotensin-converting enzyme 2

Spike protein S1

Related Entries With Identical Sequence