SMTL ID : 3d0g.1

Crystal structure of spike protein receptor-binding domain from the 2002-2003 SARS coronavirus human strain complexed with human-civet chimeric receptor ACE2

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

hetero-2-2-mer

Ligands

5 x NDG: 2-acetamido-2-deoxy-alpha-D-glucopyranose(Non-covalent)

NDG.1: 4 residues within 4Å: Chain A: N.72, T.74, V.75 Ligands: NAG.9 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.72 NDG.4: 4 residues within 4Å: Chain B: K.8, N.72, V.75 Ligands: NDG.10 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.8 Salt bridges: B:K.8 NDG.5: 1 residues within 4Å: Chain B: N.304 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.304 Salt bridges: B:K.291 NDG.6: 3 residues within 4Å: Chain B: S.402, S.527, N.528 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.402, B:S.402, B:N.528 NDG.10: 2 residues within 4Å: Chain D: T.79 Ligands: NDG.4 No protein-ligand interaction detected (PLIP)

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: H.356, E.357, H.360, E.384 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.356, A:H.360, A:E.384 ZN.7: 4 residues within 4Å: Chain B: H.356, E.357, H.360, E.384 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.356, B:H.360, B:E.384

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 5 residues within 4Å: Chain A: R.151, W.459, W.460, K.463, D.481 Ligand excluded by PLIP CL.8: 4 residues within 4Å: Chain B: R.151, W.459, W.460, D.481 Ligand excluded by PLIP

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)

NAG.9: 2 residues within 4Å: Chain C: T.79 Ligands: NDG.1 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, F., Structural analysis of major species barriers between humans and palm civets for severe acute respiratory syndrome coronavirus infections. J.Virol. (2008)

Release Date

2008-07-08

Peptides

Angiotensin-converting enzyme 2: AB
Spike glycoprotein: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
E

D
F

Angiotensin-converting enzyme 2

Spike glycoprotein

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