- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.07 Å
- Oligo State
- hetero-1-1-mer
- Ligands
- 1 x W9G: (1S,2S,3R,4S,5S)-1-(hydroxymethyl)-5-[(9-methoxynonyl)amino]cyclohexane-1,2,3,4-tetrol(Non-covalent)
- 4 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
PGE.2: 4 residues within 4Å:- Chain A: D.439, H.440, N.441, R.719
1 PLIP interactions:1 interactions with chain A- Water bridges: A:R.719
PGE.8: 4 residues within 4Å:- Chain A: W.909, K.951, G.953
- Chain B: D.70
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:K.951, A:G.953
PGE.17: 6 residues within 4Å:- Chain A: R.111, Y.112, R.113, P.115, Y.584, W.587
1 PLIP interactions:1 interactions with chain A- Water bridges: A:R.111
PGE.24: 4 residues within 4Å:- Chain A: S.762, E.764, D.765
- Ligands: PEG.6
2 PLIP interactions:2 interactions with chain A- Water bridges: A:S.762, A:S.762
- 4 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
PEG.3: 6 residues within 4Å:- Chain A: T.406, H.740, K.741, Y.875, Q.876
- Ligands: SO4.27
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:Y.875
- Water bridges: A:T.406, A:K.741
PEG.6: 4 residues within 4Å:- Chain A: S.759, Y.789, T.811
- Ligands: PGE.24
No protein-ligand interaction detected (PLIP)PEG.13: 7 residues within 4Å:- Chain A: V.894, S.895, Q.927, K.929, D.959, W.960, S.961
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:D.959
PEG.34: 3 residues within 4Å:- Chain A: A.478, S.479
- Chain B: G.112
1 PLIP interactions:1 interactions with chain A- Water bridges: A:R.481
- 17 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.4: 5 residues within 4Å:- Chain A: R.878, H.879, E.880, K.901, H.903
Ligand excluded by PLIPEDO.5: 1 residues within 4Å:- Chain A: F.548
Ligand excluded by PLIPEDO.7: 6 residues within 4Å:- Chain A: I.763, D.765, Q.766, H.776, Q.787, Y.789
Ligand excluded by PLIPEDO.9: 2 residues within 4Å:- Chain A: R.132, D.133
Ligand excluded by PLIPEDO.10: 5 residues within 4Å:- Chain A: D.304, F.306, M.564, F.570
- Ligands: W9G.1
Ligand excluded by PLIPEDO.11: 5 residues within 4Å:- Chain A: V.87, E.89, R.101, D.103, R.113
Ligand excluded by PLIPEDO.14: 6 residues within 4Å:- Chain A: Y.798, K.805, L.855, S.856, P.857, G.917
Ligand excluded by PLIPEDO.15: 6 residues within 4Å:- Chain A: F.731, T.734, I.830, P.832, G.863, E.864
Ligand excluded by PLIPEDO.16: 6 residues within 4Å:- Chain A: K.290, V.291, T.292, G.295, E.296, P.313
Ligand excluded by PLIPEDO.18: 2 residues within 4Å:- Chain A: F.873, Q.876
Ligand excluded by PLIPEDO.19: 6 residues within 4Å:- Chain A: R.836, D.846, P.848, P.907, W.909
- Chain B: D.71
Ligand excluded by PLIPEDO.20: 6 residues within 4Å:- Chain A: E.679, R.683, A.783, V.816, T.817, L.818
Ligand excluded by PLIPEDO.21: 6 residues within 4Å:- Chain A: Y.737, Q.738, K.741, E.742, E.864, L.883
Ligand excluded by PLIPEDO.22: 2 residues within 4Å:- Chain A: A.711, S.712
Ligand excluded by PLIPEDO.23: 4 residues within 4Å:- Chain A: K.95, D.395, R.398, Q.399
Ligand excluded by PLIPEDO.32: 4 residues within 4Å:- Chain B: G.90, S.91, Y.103, L.105
Ligand excluded by PLIPEDO.33: 2 residues within 4Å:- Chain B: C.73, C.75
Ligand excluded by PLIP- 1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
- 5 x SO4: SULFATE ION(Non-functional Binders)
SO4.25: 1 residues within 4Å:- Chain A: R.425
3 PLIP interactions:3 interactions with chain A- Water bridges: A:N.423, A:R.704
- Salt bridges: A:R.425
SO4.26: 5 residues within 4Å:- Chain A: K.741, H.879, D.899, K.901
- Ligands: SO4.27
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:D.899
- Water bridges: A:H.879
- Salt bridges: A:K.741, A:H.879, A:K.901
SO4.27: 8 residues within 4Å:- Chain A: Y.737, K.741, Y.875, Q.876, H.879, F.881
- Ligands: PEG.3, SO4.26
1 PLIP interactions:1 interactions with chain A- Salt bridges: A:K.741
SO4.28: 0 residues within 4Å:- (No contacts)
No protein-ligand interaction detected (PLIP)SO4.29: 3 residues within 4Å:- Chain A: H.179, R.181, A.182
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:A.182
- Salt bridges: A:H.179
- 2 x CA: CALCIUM ION(Non-covalent)
CA.30: 6 residues within 4Å:- Chain B: Q.67, D.70, Y.72, D.74, D.80, E.81
6 PLIP interactions:6 interactions with chain B- Metal complexes: B:Q.67, B:D.70, B:Y.72, B:D.74, B:D.80, B:E.81
CA.31: 6 residues within 4Å:- Chain B: R.108, D.111, V.113, D.115, D.121, E.122
6 PLIP interactions:6 interactions with chain B- Metal complexes: B:R.108, B:D.111, B:V.113, B:D.115, B:D.121, B:E.122
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Karade, S.S. et al., N-Substituted Valiolamine Derivatives as Potent Inhibitors of Endoplasmic Reticulum alpha-Glucosidases I and II with Antiviral Activity. J.Med.Chem. (2021)
- Release Date
- 2021-09-29
- Peptides
- Alpha glucosidase 2 alpha neutral subunit: A
Glucosidase 2 subunit beta: B - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.07 Å
- Oligo State
- hetero-1-1-mer
- Ligands
- 1 x W9G: (1S,2S,3R,4S,5S)-1-(hydroxymethyl)-5-[(9-methoxynonyl)amino]cyclohexane-1,2,3,4-tetrol(Non-covalent)
- 4 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- 4 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 17 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
- 5 x SO4: SULFATE ION(Non-functional Binders)
- 2 x CA: CALCIUM ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Karade, S.S. et al., N-Substituted Valiolamine Derivatives as Potent Inhibitors of Endoplasmic Reticulum alpha-Glucosidases I and II with Antiviral Activity. J.Med.Chem. (2021)
- Release Date
- 2021-09-29
- Peptides
- Alpha glucosidase 2 alpha neutral subunit: A
Glucosidase 2 subunit beta: B - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B