- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY 2.90 Å
- Oligo State
- homo-trimer
- Ligands
- 9 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 9 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
NAG-NAG.2: 2 residues within 4Å:- Chain A: I.200, N.250
No protein-ligand interaction detected (PLIP)NAG-NAG.6: 2 residues within 4Å:- Chain A: N.80, V.343
No protein-ligand interaction detected (PLIP)NAG-NAG.9: 2 residues within 4Å:- Chain A: R.235, N.258
No protein-ligand interaction detected (PLIP)NAG-NAG.12: 2 residues within 4Å:- Chain B: I.200, N.250
No protein-ligand interaction detected (PLIP)NAG-NAG.16: 2 residues within 4Å:- Chain B: N.80, V.343
No protein-ligand interaction detected (PLIP)NAG-NAG.19: 2 residues within 4Å:- Chain B: R.235, N.258
No protein-ligand interaction detected (PLIP)NAG-NAG.22: 2 residues within 4Å:- Chain C: I.200, N.250
No protein-ligand interaction detected (PLIP)NAG-NAG.26: 2 residues within 4Å:- Chain C: N.80, V.343
No protein-ligand interaction detected (PLIP)NAG-NAG.29: 2 residues within 4Å:- Chain C: R.235, N.258
No protein-ligand interaction detected (PLIP)- 3 x NAG- NAG- BMA- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
NAG-NAG-BMA-MAN-MAN-MAN-MAN.3: 10 residues within 4Å:- Chain A: N.424, T.426, K.427, K.601
- Chain C: K.516, L.520, D.524, Y.554, R.556, W.567
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:R.556, C:K.516
NAG-NAG-BMA-MAN-MAN-MAN-MAN.13: 10 residues within 4Å:- Chain A: K.516, L.520, D.524, Y.554, R.556, W.567
- Chain B: N.424, T.426, K.427, K.601
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:R.556, A:K.516
NAG-NAG-BMA-MAN-MAN-MAN-MAN.23: 10 residues within 4Å:- Chain B: K.516, L.520, D.524, Y.554, R.556, W.567
- Chain C: N.424, T.426, K.427, K.601
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:R.556, B:K.516
- 3 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
NAG-NAG-BMA.4: 2 residues within 4Å:- Chain A: N.884, T.886
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.14: 2 residues within 4Å:- Chain B: N.884, T.886
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA.24: 2 residues within 4Å:- Chain C: N.884, T.886
No protein-ligand interaction detected (PLIP)- 3 x NAG- NAG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
NAG-NAG-BMA-MAN-MAN.7: 7 residues within 4Å:- Chain A: G.135, A.136, A.138, N.139, E.263, I.264, Y.288
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA-MAN-MAN.17: 7 residues within 4Å:- Chain B: G.135, A.136, A.138, N.139, E.263, I.264, Y.288
No protein-ligand interaction detected (PLIP)NAG-NAG-BMA-MAN-MAN.27: 7 residues within 4Å:- Chain C: G.135, A.136, A.138, N.139, E.263, I.264, Y.288
No protein-ligand interaction detected (PLIP)- 3 x NAG- GAL- SIA: N-acetyl-alpha-neuraminic acid-(2-6)-beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
NAG-GAL-SIA.10: 10 residues within 4Å:- Chain A: Q.50, F.53, H.105, A.106, F.115, I.146, S.147, P.148, Q.318, R.321
10 PLIP interactions:10 interactions with chain A- Hydrogen bonds: A:Q.318, A:Q.50, A:A.106, A:A.106, A:I.146, A:Q.318, A:R.321, A:R.321
- Hydrophobic interactions: A:F.53, A:F.115, A:I.146
NAG-GAL-SIA.20: 10 residues within 4Å:- Chain B: Q.50, F.53, H.105, A.106, F.115, I.146, S.147, P.148, Q.318, R.321
10 PLIP interactions:10 interactions with chain B- Hydrogen bonds: B:Q.318, B:Q.50, B:A.106, B:A.106, B:I.146, B:Q.318, B:R.321, B:R.321
- Hydrophobic interactions: B:F.53, B:F.115, B:I.146
NAG-GAL-SIA.30: 10 residues within 4Å:- Chain C: Q.50, F.53, H.105, A.106, F.115, I.146, S.147, P.148, Q.318, R.321
10 PLIP interactions:10 interactions with chain C- Hydrogen bonds: C:Q.318, C:Q.50, C:A.106, C:A.106, C:I.146, C:Q.318, C:R.321, C:R.321
- Hydrophobic interactions: C:F.53, C:F.115, C:I.146
- 24 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
NAG.31: 1 residues within 4Å:- Chain A: N.501
Ligand excluded by PLIPNAG.32: 1 residues within 4Å:- Chain A: N.606
Ligand excluded by PLIPNAG.33: 3 residues within 4Å:- Chain A: N.633, N.661, Y.663
Ligand excluded by PLIPNAG.34: 4 residues within 4Å:- Chain A: L.721, Q.722, N.733, L.773
Ligand excluded by PLIPNAG.35: 1 residues within 4Å:- Chain A: N.788
Ligand excluded by PLIPNAG.36: 2 residues within 4Å:- Chain A: N.799, N.1159
Ligand excluded by PLIPNAG.37: 4 residues within 4Å:- Chain A: Q.51, D.55, N.118, Q.121
Ligand excluded by PLIPNAG.38: 5 residues within 4Å:- Chain A: N.169, F.170, S.171, G.173, R.177
Ligand excluded by PLIPNAG.40: 1 residues within 4Å:- Chain B: N.501
Ligand excluded by PLIPNAG.41: 1 residues within 4Å:- Chain B: N.606
Ligand excluded by PLIPNAG.42: 3 residues within 4Å:- Chain B: N.633, N.661, Y.663
Ligand excluded by PLIPNAG.43: 4 residues within 4Å:- Chain B: L.721, Q.722, N.733, L.773
Ligand excluded by PLIPNAG.44: 1 residues within 4Å:- Chain B: N.788
Ligand excluded by PLIPNAG.45: 2 residues within 4Å:- Chain B: N.799, N.1159
Ligand excluded by PLIPNAG.46: 4 residues within 4Å:- Chain B: Q.51, D.55, N.118, Q.121
Ligand excluded by PLIPNAG.47: 5 residues within 4Å:- Chain B: N.169, F.170, S.171, G.173, R.177
Ligand excluded by PLIPNAG.49: 1 residues within 4Å:- Chain C: N.501
Ligand excluded by PLIPNAG.50: 1 residues within 4Å:- Chain C: N.606
Ligand excluded by PLIPNAG.51: 3 residues within 4Å:- Chain C: N.633, N.661, Y.663
Ligand excluded by PLIPNAG.52: 4 residues within 4Å:- Chain C: L.721, Q.722, N.733, L.773
Ligand excluded by PLIPNAG.53: 1 residues within 4Å:- Chain C: N.788
Ligand excluded by PLIPNAG.54: 2 residues within 4Å:- Chain C: N.799, N.1159
Ligand excluded by PLIPNAG.55: 4 residues within 4Å:- Chain C: Q.51, D.55, N.118, Q.121
Ligand excluded by PLIPNAG.56: 5 residues within 4Å:- Chain C: N.169, F.170, S.171, G.173, R.177
Ligand excluded by PLIP- 3 x FOL: FOLIC ACID(Non-covalent)
FOL.39: 13 residues within 4Å:- Chain A: W.58, P.59, R.60, P.61, H.95, A.137, G.142, T.143, I.154, A.323, W.324, A.325, A.326
13 PLIP interactions:13 interactions with chain A- Hydrophobic interactions: A:W.58, A:P.59
- Hydrogen bonds: A:P.59, A:R.60, A:T.143, A:T.143, A:W.324, A:W.324, A:A.326
- Salt bridges: A:H.95
- pi-Stacking: A:W.58, A:W.58, A:W.58
FOL.48: 13 residues within 4Å:- Chain B: W.58, P.59, R.60, P.61, H.95, A.137, G.142, T.143, I.154, A.323, W.324, A.325, A.326
13 PLIP interactions:13 interactions with chain B- Hydrophobic interactions: B:W.58, B:P.59
- Hydrogen bonds: B:P.59, B:R.60, B:T.143, B:T.143, B:W.324, B:W.324, B:A.326
- Salt bridges: B:H.95
- pi-Stacking: B:W.58, B:W.58, B:W.58
FOL.57: 13 residues within 4Å:- Chain C: W.58, P.59, R.60, P.61, H.95, A.137, G.142, T.143, I.154, A.323, W.324, A.325, A.326
13 PLIP interactions:13 interactions with chain C- Hydrophobic interactions: C:W.58, C:P.59
- Hydrogen bonds: C:P.59, C:R.60, C:T.143, C:T.143, C:W.324, C:W.324, C:A.326
- Salt bridges: C:H.95
- pi-Stacking: C:W.58, C:W.58, C:W.58
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Park, Y.J. et al., Structures of MERS-CoV spike glycoprotein in complex with sialoside attachment receptors. Nat.Struct.Mol.Biol. (2019)
- Release Date
- 2019-12-11
- Peptides
- Spike glycoprotein: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
C
- Coordinates
- PDB Format
- Method
- ELECTRON MICROSCOPY 2.90 Å
- Oligo State
- homo-trimer
- Ligands
- 9 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 9 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 3 x NAG- NAG- BMA- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 3 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 3 x NAG- NAG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 3 x NAG- GAL- SIA: N-acetyl-alpha-neuraminic acid-(2-6)-beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
- 24 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 3 x FOL: FOLIC ACID(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Park, Y.J. et al., Structures of MERS-CoV spike glycoprotein in complex with sialoside attachment receptors. Nat.Struct.Mol.Biol. (2019)
- Release Date
- 2019-12-11
- Peptides
- Spike glycoprotein: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
C