- 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)
- 6 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 3 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
PGE.3: 3 residues within 4Å:- Chain A: S.762, E.764, D.765
No protein-ligand interaction detected (PLIP)PGE.9: 4 residues within 4Å:- Chain A: W.909, K.951, G.953
- Chain B: D.70
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:K.951
PGE.35: 8 residues within 4Å:- Chain A: N.441
- Chain B: P.88, N.89, G.90, S.91, Y.103, I.104, L.105
2 PLIP interactions:1 interactions with chain B, 1 interactions with chain A- Hydrogen bonds: B:Y.103, A:N.441
- 22 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.4: 6 residues within 4Å:- Chain A: I.763, D.765, Q.766, H.776, Q.787, Y.789
Ligand excluded by PLIPEDO.5: 3 residues within 4Å:- Chain A: N.441, R.719
- Ligands: EDO.6
Ligand excluded by PLIPEDO.6: 3 residues within 4Å:- Chain A: D.720, F.723
- Ligands: EDO.5
Ligand excluded by PLIPEDO.8: 4 residues within 4Å:- Chain A: K.95, D.395, R.398, Q.399
Ligand excluded by PLIPEDO.10: 4 residues within 4Å:- Chain A: A.61, L.62, L.63, D.64
Ligand excluded by PLIPEDO.13: 1 residues within 4Å:- Chain A: P.556
Ligand excluded by PLIPEDO.15: 2 residues within 4Å:- Chain A: W.247, E.248
Ligand excluded by PLIPEDO.16: 5 residues within 4Å:- Chain A: F.673, K.674, H.699, D.701, T.702
Ligand excluded by PLIPEDO.17: 2 residues within 4Å:- Chain A: W.422, D.701
Ligand excluded by PLIPEDO.18: 5 residues within 4Å:- Chain A: D.304, F.306, F.570, V.575
- Ligands: PEG.12
Ligand excluded by PLIPEDO.19: 5 residues within 4Å:- Chain A: V.87, E.89, R.101, D.103, R.113
Ligand excluded by PLIPEDO.20: 2 residues within 4Å:- Chain A: G.614, F.873
Ligand excluded by PLIPEDO.21: 6 residues within 4Å:- Chain A: F.731, T.734, I.830, P.832, G.863, E.864
Ligand excluded by PLIPEDO.22: 3 residues within 4Å:- Chain A: S.517, D.518, E.520
Ligand excluded by PLIPEDO.23: 6 residues within 4Å:- Chain A: K.290, V.291, T.292, E.296, Y.298, P.313
Ligand excluded by PLIPEDO.24: 2 residues within 4Å:- Chain A: D.846, P.907
Ligand excluded by PLIPEDO.26: 4 residues within 4Å:- Chain A: H.807, G.808, P.809, Q.810
Ligand excluded by PLIPEDO.27: 6 residues within 4Å:- Chain A: R.836, D.846, P.848, P.907, W.909
- Chain B: D.71
Ligand excluded by PLIPEDO.32: 4 residues within 4Å:- Chain A: A.478, R.481
- Chain B: G.112, T.127
Ligand excluded by PLIPEDO.36: 5 residues within 4Å:- Chain B: C.114, D.115, C.116, C.117, T.132
Ligand excluded by PLIPEDO.37: 6 residues within 4Å:- Chain B: E.122, Y.123, N.124, S.125, G.126, T.127
Ligand excluded by PLIPEDO.38: 4 residues within 4Å:- Chain B: C.73, D.74, C.75, K.76
Ligand excluded by PLIP- 4 x SO4: SULFATE ION(Non-functional Binders)
SO4.28: 2 residues within 4Å:- Chain A: N.423, R.425
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:N.423
- Water bridges: A:R.421, A:R.704
- Salt bridges: A:R.425
SO4.29: 6 residues within 4Å:- Chain A: I.800, Q.801, Y.803, R.833, M.835, F.852
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:Q.801
- Water bridges: A:R.833, A:R.833
- Salt bridges: A:R.833
SO4.30: 6 residues within 4Å:- Chain A: Y.737, K.741, Y.875, Q.876, H.879, F.881
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:Y.737
- Salt bridges: A:K.741
SO4.31: 9 residues within 4Å:- Chain A: F.437, D.438, N.441, M.442, P.443, R.838, R.839
- Chain B: L.105, R.108
8 PLIP interactions:5 interactions with chain A, 3 interactions with chain B- Hydrogen bonds: A:F.437, A:N.441, A:M.442
- Water bridges: A:R.839, A:R.839, B:S.107, B:S.107
- Salt bridges: B:R.108
- 2 x CA: CALCIUM ION(Non-covalent)
CA.33: 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.34: 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 2.30 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)
- 6 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 3 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- 22 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 4 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