- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.30 Å
- Oligo State
- hetero-1-1-mer
- Ligands
- 1 x W9S: (1S,2S,3R,4S,5S)-5-amino-1-(hydroxymethyl)cyclohexane-1,2,3,4-tetrol(Non-covalent)
- 11 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.2: 3 residues within 4Å:- Chain A: R.719, D.720, F.723
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:D.720
EDO.4: 4 residues within 4Å:- Chain A: W.462, P.470, E.552, G.553
3 PLIP interactions:3 interactions with chain A- Water bridges: A:W.462, A:P.468, A:L.471
EDO.5: 2 residues within 4Å:- Chain A: W.422, D.701
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:D.701
EDO.6: 5 residues within 4Å:- Chain A: D.304, F.306, M.564, R.623
- Ligands: W9S.1
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:R.623
- Water bridges: A:D.639
EDO.7: 5 residues within 4Å:- Chain A: F.460, Y.498, R.499, V.500, N.550
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:R.499, A:V.500
- Water bridges: A:F.460, A:E.552
EDO.9: 3 residues within 4Å:- Chain A: G.614, F.873, Q.876
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:G.614, A:Q.876
EDO.12: 6 residues within 4Å:- Chain A: F.731, T.734, I.830, P.832, G.863, E.864
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:E.864
- Water bridges: A:E.864
EDO.13: 6 residues within 4Å:- Chain A: L.412, Y.733, K.845, L.867, D.868, G.870
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:D.868
EDO.14: 4 residues within 4Å:- Chain A: R.111, Y.112, R.113, W.587
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:R.113
EDO.15: 5 residues within 4Å:- Chain A: V.291, T.292, E.296, Y.298, P.313
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:E.296
EDO.22: 6 residues within 4Å:- Chain B: E.122, Y.123, N.124, S.125, G.126, T.127
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:E.122, B:S.125, B:G.126
- 1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- 4 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
PEG.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:K.951
PEG.10: 8 residues within 4Å:- Chain A: V.894, S.895, S.896, Q.927, T.928, D.959, W.960, S.961
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:D.959
- Water bridges: A:S.897
PEG.11: 3 residues within 4Å:- Chain A: S.762, E.764, D.765
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:S.762, A:D.765
PEG.18: 4 residues within 4Å:- Chain A: A.478, S.479
- Chain B: G.112, T.127
No protein-ligand interaction detected (PLIP)- 2 x SO4: SULFATE ION(Non-functional Binders)
SO4.16: 3 residues within 4Å:- Chain A: R.425, E.452, R.466
1 PLIP interactions:1 interactions with chain A- Salt bridges: A:R.466
SO4.17: 4 residues within 4Å:- Chain A: K.805, H.806, H.807, Q.810
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:H.807, A:H.807, A:Q.810
- Salt bridges: A:H.806, A:H.807
- 2 x CA: CALCIUM ION(Non-covalent)
CA.19: 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.20: 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
- 1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
- 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
CB
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.30 Å
- Oligo State
- hetero-1-1-mer
- Ligands
- 1 x W9S: (1S,2S,3R,4S,5S)-5-amino-1-(hydroxymethyl)cyclohexane-1,2,3,4-tetrol(Non-covalent)
- 11 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- 4 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 2 x SO4: SULFATE ION(Non-functional Binders)
- 2 x CA: CALCIUM ION(Non-covalent)
- 1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
- 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
CB
D