SMTL ID : 8xz8.1

BA.2.86 Spike in complex with bovine ACE2 (bound 1 ACE2)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-3-mer

Ligands

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

NAG-BMA.1: 3 residues within 4Å: Chain B: N.279, E.280, N.281 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.279, B:E.280 NAG-BMA.2: 1 residues within 4Å: Chain B: N.1132 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.1132 NAG-BMA.3: 3 residues within 4Å: Chain B: N.799, S.801, Q.802 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.799, B:S.801, B:Q.802 NAG-BMA.4: 4 residues within 4Å: Chain B: N.715, L.920, Q.924, Q.1069 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.715, B:Q.1069 NAG-BMA.5: 4 residues within 4Å: Chain B: N.1096, T.1098, H.1099, F.1101 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.1098, B:H.1099 NAG-BMA.6: 3 residues within 4Å: Chain C: E.339, N.353, T.355 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:E.339 NAG-BMA.7: 3 residues within 4Å: Chain B: K.556 Chain C: E.280, N.281 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.279, C:E.280 NAG-BMA.8: 1 residues within 4Å: Chain C: N.1132 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.1132 NAG-BMA.9: 3 residues within 4Å: Chain C: N.799, S.801, Q.802 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:N.799, C:S.801, C:Q.802 NAG-BMA.10: 2 residues within 4Å: Chain C: N.715, Q.924 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:N.715 NAG-BMA.11: 4 residues within 4Å: Chain C: N.1096, T.1098, H.1099, F.1101 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:T.1098, C:H.1099 NAG-BMA.12: 2 residues within 4Å: Chain D: N.353, T.355 No protein-ligand interaction detected (PLIP) NAG-BMA.13: 3 residues within 4Å: Chain D: N.279, E.280, N.281 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:N.279, D:E.280, D:E.280 NAG-BMA.14: 1 residues within 4Å: Chain D: N.1132 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:N.1132 NAG-BMA.15: 3 residues within 4Å: Chain D: N.799, S.801, Q.802 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:N.799, D:S.801, D:Q.802 NAG-BMA.16: 4 residues within 4Å: Chain D: N.715, L.920, Q.924, Q.1069 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:Q.1069 NAG-BMA.17: 4 residues within 4Å: Chain D: N.1096, T.1098, H.1099, F.1101 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:T.1098, D:H.1099

1 x ZN: ZINC ION(Non-covalent)

ZN.18: 3 residues within 4Å: Chain A: P.345, H.373, E.374 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:P.345, A:E.374, A:E.374

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

CL.19: 4 residues within 4Å: Chain A: R.168, W.270, F.451, K.480 Ligand excluded by PLIP

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

NAG.20: 3 residues within 4Å: Chain A: N.49, N.53, T.55 Ligand excluded by PLIP NAG.21: 3 residues within 4Å: Chain A: N.90, T.92, L.93 Ligand excluded by PLIP NAG.22: 2 residues within 4Å: Chain A: E.297, N.298 Ligand excluded by PLIP NAG.23: 1 residues within 4Å: Chain A: N.431 Ligand excluded by PLIP NAG.24: 3 residues within 4Å: Chain A: A.419, S.544, N.545 Ligand excluded by PLIP NAG.25: 5 residues within 4Å: Chain B: N.123, T.125, N.126, F.128, V.171 Ligand excluded by PLIP NAG.26: 3 residues within 4Å: Chain B: Y.31, F.62, N.64 Ligand excluded by PLIP NAG.27: 5 residues within 4Å: Chain B: S.113, E.133, N.164, N.165 Chain D: I.467 Ligand excluded by PLIP NAG.28: 8 residues within 4Å: Chain B: T.109, N.233, T.235 Chain D: R.456, L.460, E.464, R.465, D.466 Ligand excluded by PLIP NAG.29: 2 residues within 4Å: Chain B: N.330, Q.578 Ligand excluded by PLIP NAG.30: 2 residues within 4Å: Chain B: N.614, T.616 Ligand excluded by PLIP NAG.31: 2 residues within 4Å: Chain B: Y.653, N.655 Ligand excluded by PLIP NAG.32: 3 residues within 4Å: Chain B: S.706, N.707 Chain C: Y.794 Ligand excluded by PLIP NAG.33: 4 residues within 4Å: Chain B: A.704, E.1070, N.1072 Chain C: Q.893 Ligand excluded by PLIP NAG.34: 2 residues within 4Å: Chain B: N.353, R.465 Ligand excluded by PLIP NAG.35: 3 residues within 4Å: Chain B: H.338, N.342, F.370 Ligand excluded by PLIP NAG.36: 3 residues within 4Å: Chain C: N.123, T.125, V.171 Ligand excluded by PLIP NAG.37: 2 residues within 4Å: Chain C: Y.31, N.64 Ligand excluded by PLIP NAG.38: 2 residues within 4Å: Chain C: N.164, N.165 Ligand excluded by PLIP NAG.39: 4 residues within 4Å: Chain C: T.109, N.233, T.235, R.236 Ligand excluded by PLIP NAG.40: 2 residues within 4Å: Chain C: N.614, T.616 Ligand excluded by PLIP NAG.41: 1 residues within 4Å: Chain C: N.655 Ligand excluded by PLIP NAG.42: 3 residues within 4Å: Chain C: S.706, N.707 Chain D: Y.794 Ligand excluded by PLIP NAG.43: 5 residues within 4Å: Chain C: A.704, E.1070, K.1071, N.1072 Chain D: Q.893 Ligand excluded by PLIP NAG.44: 2 residues within 4Å: Chain C: N.342, T.344 Ligand excluded by PLIP NAG.45: 2 residues within 4Å: Chain C: N.330, Q.578 Ligand excluded by PLIP NAG.46: 5 residues within 4Å: Chain D: N.123, A.124, T.125, N.126, V.171 Ligand excluded by PLIP NAG.47: 3 residues within 4Å: Chain D: Y.31, F.62, N.64 Ligand excluded by PLIP NAG.48: 2 residues within 4Å: Chain D: N.164, N.165 Ligand excluded by PLIP NAG.49: 3 residues within 4Å: Chain C: E.464 Chain D: T.109, N.233 Ligand excluded by PLIP NAG.50: 2 residues within 4Å: Chain D: N.614, T.616 Ligand excluded by PLIP NAG.51: 2 residues within 4Å: Chain D: Y.653, N.655 Ligand excluded by PLIP NAG.52: 4 residues within 4Å: Chain B: I.792, Y.794 Chain D: S.706, N.707 Ligand excluded by PLIP NAG.53: 5 residues within 4Å: Chain B: Q.893 Chain D: A.704, E.1070, K.1071, N.1072 Ligand excluded by PLIP NAG.54: 2 residues within 4Å: Chain D: N.342, T.344 Ligand excluded by PLIP NAG.55: 2 residues within 4Å: Chain D: N.330, Q.578 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yue, C. et al., BA.2.86 Spike in complex with bovine ACE2. To Be Published

Release Date

2024-11-13

Peptides

Angiotensin-converting enzyme: A
Spike glycoprotein: BCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Angiotensin-converting enzyme

Spike glycoprotein

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