SMTL ID : 7kj4.1

SARS-CoV-2 Spike Glycoprotein with three ACE2 Bound

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-3-3-mer

Ligands

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

NAG-NAG.1: 2 residues within 4Å: Chain A: N.788, S.790 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 4 residues within 4Å: Chain A: N.1085, T.1087, H.1088, F.1090 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 2 residues within 4Å: Chain A: I.1119, N.1121 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 3 residues within 4Å: Chain B: N.788, S.790, Q.791 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 4 residues within 4Å: Chain B: N.1085, T.1087, H.1088, F.1090 No protein-ligand interaction detected (PLIP) NAG-NAG.6: 2 residues within 4Å: Chain B: I.1119, N.1121 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 2 residues within 4Å: Chain C: N.788, S.790 No protein-ligand interaction detected (PLIP) NAG-NAG.8: 4 residues within 4Å: Chain C: N.1085, T.1087, H.1088, F.1090 No protein-ligand interaction detected (PLIP) NAG-NAG.9: 1 residues within 4Å: Chain C: N.1121 No protein-ligand interaction detected (PLIP) NAG-NAG.10: 2 residues within 4Å: Chain D: N.43, Q.330 No protein-ligand interaction detected (PLIP) NAG-NAG.11: 1 residues within 4Å: Chain D: N.80 No protein-ligand interaction detected (PLIP) NAG-NAG.12: 2 residues within 4Å: Chain D: Q.91, N.93 No protein-ligand interaction detected (PLIP) NAG-NAG.13: 3 residues within 4Å: Chain D: F.275, N.422, W.584 No protein-ligand interaction detected (PLIP) NAG-NAG.14: 1 residues within 4Å: Chain D: N.536 No protein-ligand interaction detected (PLIP) NAG-NAG.15: 2 residues within 4Å: Chain E: N.43, Q.330 No protein-ligand interaction detected (PLIP) NAG-NAG.16: 2 residues within 4Å: Chain E: K.16, N.80 No protein-ligand interaction detected (PLIP) NAG-NAG.17: 4 residues within 4Å: Chain E: Q.71, Q.91, N.93, V.97 No protein-ligand interaction detected (PLIP) NAG-NAG.18: 3 residues within 4Å: Chain E: F.275, N.422, W.584 No protein-ligand interaction detected (PLIP) NAG-NAG.19: 1 residues within 4Å: Chain E: N.536 No protein-ligand interaction detected (PLIP) NAG-NAG.20: 5 residues within 4Å: Chain F: N.43, T.45, N.48, N.328, Q.330 No protein-ligand interaction detected (PLIP) NAG-NAG.21: 1 residues within 4Å: Chain F: N.80 No protein-ligand interaction detected (PLIP) NAG-NAG.22: 2 residues within 4Å: Chain F: N.93, H.185 No protein-ligand interaction detected (PLIP) NAG-NAG.23: 3 residues within 4Å: Chain F: F.275, N.422, W.584 No protein-ligand interaction detected (PLIP) NAG-NAG.24: 2 residues within 4Å: Chain F: S.410, N.536 No protein-ligand interaction detected (PLIP)

42 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)(Non-covalent)

NAG.25: 2 residues within 4Å: Chain A: Y.15, N.48 Ligand excluded by PLIP NAG.26: 4 residues within 4Å: Chain A: N.109, A.110, N.112, V.114 Ligand excluded by PLIP NAG.27: 1 residues within 4Å: Chain A: N.221 Ligand excluded by PLIP NAG.28: 2 residues within 4Å: Chain A: E.268, N.269 Ligand excluded by PLIP NAG.29: 3 residues within 4Å: Chain A: N.318, P.566, Q.567 Ligand excluded by PLIP NAG.30: 4 residues within 4Å: Chain A: F.329, N.330, L.355, S.358 Ligand excluded by PLIP NAG.31: 1 residues within 4Å: Chain A: N.590 Ligand excluded by PLIP NAG.32: 2 residues within 4Å: Chain A: N.603, T.605 Ligand excluded by PLIP NAG.33: 2 residues within 4Å: Chain A: H.642, N.644 Ligand excluded by PLIP NAG.34: 2 residues within 4Å: Chain A: N.696, G.1118 Ligand excluded by PLIP NAG.35: 5 residues within 4Å: Chain A: T.703, N.704, L.909, Q.913, Q.1058 Ligand excluded by PLIP NAG.36: 3 residues within 4Å: Chain A: A.693, E.1059, N.1061 Ligand excluded by PLIP NAG.37: 3 residues within 4Å: Chain A: E.119, N.151, N.152 Ligand excluded by PLIP NAG.38: 1 residues within 4Å: Chain B: N.48 Ligand excluded by PLIP NAG.39: 4 residues within 4Å: Chain B: N.109, N.112, V.114, K.116 Ligand excluded by PLIP NAG.40: 1 residues within 4Å: Chain B: N.221 Ligand excluded by PLIP NAG.41: 2 residues within 4Å: Chain B: E.268, N.269 Ligand excluded by PLIP NAG.42: 2 residues within 4Å: Chain B: N.318, Q.567 Ligand excluded by PLIP NAG.43: 1 residues within 4Å: Chain B: N.330 Ligand excluded by PLIP NAG.44: 1 residues within 4Å: Chain B: N.590 Ligand excluded by PLIP NAG.45: 2 residues within 4Å: Chain B: N.603, T.605 Ligand excluded by PLIP NAG.46: 2 residues within 4Å: Chain B: H.642, N.644 Ligand excluded by PLIP NAG.47: 3 residues within 4Å: Chain B: N.696, I.1117, G.1118 Ligand excluded by PLIP NAG.48: 4 residues within 4Å: Chain B: N.704, L.909, Q.913, Q.1058 Ligand excluded by PLIP NAG.49: 3 residues within 4Å: Chain B: E.1059, K.1060, N.1061 Ligand excluded by PLIP NAG.50: 3 residues within 4Å: Chain B: E.119, N.151, N.152 Ligand excluded by PLIP NAG.51: 1 residues within 4Å: Chain C: N.48 Ligand excluded by PLIP NAG.52: 3 residues within 4Å: Chain C: N.109, A.110, T.111 Ligand excluded by PLIP NAG.53: 2 residues within 4Å: Chain C: N.221, T.223 Ligand excluded by PLIP NAG.54: 3 residues within 4Å: Chain C: N.267, E.268, N.269 Ligand excluded by PLIP NAG.55: 2 residues within 4Å: Chain C: N.318, L.569 Ligand excluded by PLIP NAG.56: 1 residues within 4Å: Chain C: N.330 Ligand excluded by PLIP NAG.57: 1 residues within 4Å: Chain C: N.590 Ligand excluded by PLIP NAG.58: 2 residues within 4Å: Chain C: N.603, T.605 Ligand excluded by PLIP NAG.59: 1 residues within 4Å: Chain C: N.644 Ligand excluded by PLIP NAG.60: 4 residues within 4Å: Chain B: D.783 Chain C: N.696, I.1117, G.1118 Ligand excluded by PLIP NAG.61: 4 residues within 4Å: Chain C: T.703, N.704, Q.913, Q.1058 Ligand excluded by PLIP NAG.62: 1 residues within 4Å: Chain C: N.1061 Ligand excluded by PLIP NAG.63: 2 residues within 4Å: Chain C: E.119, N.152 Ligand excluded by PLIP NAG.64: 2 residues within 4Å: Chain D: K.299, N.312 Ligand excluded by PLIP NAG.65: 3 residues within 4Å: Chain E: K.299, V.306, N.312 Ligand excluded by PLIP NAG.66: 2 residues within 4Å: Chain F: K.299, N.312 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xiao, T. et al., A trimeric human angiotensin-converting enzyme 2 as an anti-SARS-CoV-2 agent. Nat.Struct.Mol.Biol. (2021)

Release Date

2020-11-11

Peptides

Spike glycoprotein: ABC
Angiotensin-converting enzyme 2: DEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Spike glycoprotein

Angiotensin-converting enzyme 2

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