- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- homo-trimer
- Ligands
- 11 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 59 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)(Non-functional Binders)(Non-covalent)
NAG.12: 4 residues within 4Å:- Chain A: C.15, N.17, N.137
- Ligands: NAG.13
Ligand excluded by PLIPNAG.13: 1 residues within 4Å:- Ligands: NAG.12
Ligand excluded by PLIPNAG.14: 1 residues within 4Å:- Chain A: N.61
Ligand excluded by PLIPNAG.15: 5 residues within 4Å:- Chain A: N.122, T.124, N.125, V.127, K.129
Ligand excluded by PLIPNAG.16: 4 residues within 4Å:- Chain A: H.146, N.148, N.149, M.153
Ligand excluded by PLIPNAG.17: 2 residues within 4Å:- Chain A: N.164, N.165
Ligand excluded by PLIPNAG.18: 4 residues within 4Å:- Chain A: N.234
- Chain C: R.457, S.459, K.462
Ligand excluded by PLIPNAG.19: 1 residues within 4Å:- Chain A: N.282
Ligand excluded by PLIPNAG.20: 3 residues within 4Å:- Chain A: G.339, N.343
- Ligands: NAG.21
Ligand excluded by PLIPNAG.21: 2 residues within 4Å:- Chain A: N.370
- Ligands: NAG.20
Ligand excluded by PLIPNAG.22: 1 residues within 4Å:- Chain A: N.603
Ligand excluded by PLIPNAG.23: 5 residues within 4Å:- Chain A: N.616, Q.644, T.645, R.646
- Ligands: NAG.24
Ligand excluded by PLIPNAG.24: 1 residues within 4Å:- Ligands: NAG.23
Ligand excluded by PLIPNAG.25: 1 residues within 4Å:- Chain A: N.657
Ligand excluded by PLIPNAG.26: 3 residues within 4Å:- Chain A: N.709, I.1130, G.1131
Ligand excluded by PLIPNAG.27: 4 residues within 4Å:- Chain A: N.801, S.803, Q.804
- Ligands: NAG.28
Ligand excluded by PLIPNAG.28: 1 residues within 4Å:- Ligands: NAG.27
Ligand excluded by PLIPNAG.29: 2 residues within 4Å:- Chain A: N.1134
- Ligands: NAG.30
Ligand excluded by PLIPNAG.30: 1 residues within 4Å:- Ligands: NAG.29
Ligand excluded by PLIPNAG.32: 4 residues within 4Å:- Chain B: C.15, N.17, N.137
- Ligands: NAG.33
Ligand excluded by PLIPNAG.33: 1 residues within 4Å:- Ligands: NAG.32
Ligand excluded by PLIPNAG.34: 1 residues within 4Å:- Chain B: N.61
Ligand excluded by PLIPNAG.35: 5 residues within 4Å:- Chain B: N.122, T.124, N.125, V.127, K.129
Ligand excluded by PLIPNAG.36: 4 residues within 4Å:- Chain B: H.146, N.148, N.149, M.153
Ligand excluded by PLIPNAG.37: 2 residues within 4Å:- Chain B: N.164, N.165
Ligand excluded by PLIPNAG.38: 5 residues within 4Å:- Chain A: R.457, S.459, N.460, K.462
- Chain B: N.234
Ligand excluded by PLIPNAG.39: 1 residues within 4Å:- Chain B: N.282
Ligand excluded by PLIPNAG.40: 3 residues within 4Å:- Chain B: G.339, N.343
- Ligands: NAG.41
Ligand excluded by PLIPNAG.41: 2 residues within 4Å:- Chain B: N.370
- Ligands: NAG.40
Ligand excluded by PLIPNAG.42: 1 residues within 4Å:- Chain B: N.603
Ligand excluded by PLIPNAG.43: 5 residues within 4Å:- Chain B: N.616, Q.644, T.645, R.646
- Ligands: NAG.44
Ligand excluded by PLIPNAG.44: 1 residues within 4Å:- Ligands: NAG.43
Ligand excluded by PLIPNAG.45: 1 residues within 4Å:- Chain B: N.657
Ligand excluded by PLIPNAG.46: 3 residues within 4Å:- Chain B: N.709, I.1130, G.1131
Ligand excluded by PLIPNAG.47: 4 residues within 4Å:- Chain B: N.801, S.803, Q.804
- Ligands: NAG.48
Ligand excluded by PLIPNAG.48: 1 residues within 4Å:- Ligands: NAG.47
Ligand excluded by PLIPNAG.49: 4 residues within 4Å:- Chain B: A.706, E.1072, N.1074
- Ligands: NAG.50
Ligand excluded by PLIPNAG.50: 2 residues within 4Å:- Chain B: A.706
- Ligands: NAG.49
Ligand excluded by PLIPNAG.51: 2 residues within 4Å:- Chain B: N.1134
- Ligands: NAG.52
Ligand excluded by PLIPNAG.52: 1 residues within 4Å:- Ligands: NAG.51
Ligand excluded by PLIPNAG.54: 4 residues within 4Å:- Chain C: C.15, N.17, N.137
- Ligands: NAG.55
Ligand excluded by PLIPNAG.55: 1 residues within 4Å:- Ligands: NAG.54
Ligand excluded by PLIPNAG.56: 1 residues within 4Å:- Chain C: N.61
Ligand excluded by PLIPNAG.57: 5 residues within 4Å:- Chain C: N.122, T.124, N.125, V.127, K.129
Ligand excluded by PLIPNAG.58: 4 residues within 4Å:- Chain C: H.146, N.148, N.149, M.153
Ligand excluded by PLIPNAG.59: 2 residues within 4Å:- Chain C: N.164, N.165
Ligand excluded by PLIPNAG.60: 4 residues within 4Å:- Chain B: R.457, S.459, K.462
- Chain C: N.234
Ligand excluded by PLIPNAG.61: 1 residues within 4Å:- Chain C: N.282
Ligand excluded by PLIPNAG.62: 1 residues within 4Å:- Chain C: N.603
Ligand excluded by PLIPNAG.63: 5 residues within 4Å:- Chain C: N.616, Q.644, T.645, R.646
- Ligands: NAG.64
Ligand excluded by PLIPNAG.64: 1 residues within 4Å:- Ligands: NAG.63
Ligand excluded by PLIPNAG.65: 1 residues within 4Å:- Chain C: N.657
Ligand excluded by PLIPNAG.66: 4 residues within 4Å:- Chain A: D.796
- Chain C: N.709, I.1130, G.1131
Ligand excluded by PLIPNAG.67: 4 residues within 4Å:- Chain C: N.801, S.803, Q.804
- Ligands: NAG.68
Ligand excluded by PLIPNAG.68: 1 residues within 4Å:- Ligands: NAG.67
Ligand excluded by PLIPNAG.69: 4 residues within 4Å:- Chain C: A.706, E.1072, N.1074
- Ligands: NAG.70
Ligand excluded by PLIPNAG.70: 2 residues within 4Å:- Chain C: A.706
- Ligands: NAG.69
Ligand excluded by PLIPNAG.71: 2 residues within 4Å:- Chain C: N.1134
- Ligands: NAG.72
Ligand excluded by PLIPNAG.72: 1 residues within 4Å:- Ligands: NAG.71
Ligand excluded by PLIP- 3 x EIC: LINOLEIC ACID(Non-covalent)
EIC.31: 15 residues within 4Å:- Chain A: C.336, P.337, F.338, I.358, A.363, Y.365, L.368, Y.369, F.377, L.387, V.395, I.434, L.513
- Chain C: R.408, T.415
15 PLIP interactions:13 interactions with chain A, 2 interactions with chain C- Hydrophobic interactions: A:F.338, A:F.338, A:I.358, A:A.363, A:Y.365, A:Y.365, A:L.368, A:F.377, A:L.387, A:L.387, A:V.395, A:I.434, A:L.513
- Hydrogen bonds: C:T.415
- Salt bridges: C:R.408
EIC.53: 13 residues within 4Å:- Chain A: R.408, Q.409, T.415, G.416
- Chain B: F.338, I.358, A.363, Y.365, F.374, F.377, L.387, V.395, I.434
12 PLIP interactions:11 interactions with chain B, 1 interactions with chain A- Hydrophobic interactions: B:F.338, B:I.358, B:A.363, B:Y.365, B:Y.365, B:F.374, B:F.377, B:L.387, B:L.387, B:V.395, B:I.434
- Salt bridges: A:R.408
EIC.73: 13 residues within 4Å:- Chain B: Q.409, G.416, K.417
- Chain C: P.337, F.338, I.358, A.363, Y.365, Y.369, F.374, F.377, L.513, F.515
11 PLIP interactions:8 interactions with chain C, 3 interactions with chain B- Hydrophobic interactions: C:F.338, C:I.358, C:A.363, C:Y.365, C:Y.369, C:F.374, C:F.377, C:F.515
- Hydrogen bonds: B:Q.409, B:K.417
- Salt bridges: B:R.408
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Yan, R. et al., Structural basis for the different states of the spike protein of SARS-CoV-2 in complex with ACE2. Cell Res. (2021)
- Release Date
- 2021-03-31
- Peptides
- Spike glycoprotein: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
C
- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY
- Oligo State
- homo-trimer
- Ligands
- 11 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 59 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)(Non-functional Binders)(Non-covalent)
- 3 x EIC: LINOLEIC ACID(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Yan, R. et al., Structural basis for the different states of the spike protein of SARS-CoV-2 in complex with ACE2. Cell Res. (2021)
- Release Date
- 2021-03-31
- Peptides
- Spike glycoprotein: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
C