- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.38 Å
- Oligo State
- hetero-1-1-mer
- Ligands
- 1 x WA7: (1S,2S,3R,4S,5S)-1-(hydroxymethyl)-5-[(4-{[2-nitro-4-(triazan-1-yl)phenyl]amino}butyl)amino]cyclohexane-1,2,3,4-tetrol(Non-covalent)
- 4 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
PGE.2: 5 residues within 4Å:- Chain A: W.909, K.951, G.953, S.955
- Chain B: D.70
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:K.951
- Water bridges: A:P.907, A:I.908
PGE.6: 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- Hydrogen bonds: A:R.113
PGE.7: 3 residues within 4Å:- Chain A: S.762, E.764, D.765
No protein-ligand interaction detected (PLIP)PGE.8: 6 residues within 4Å:- Chain A: T.928, K.929, G.930, S.931, P.932, E.933
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:E.933
- 12 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.3: 6 residues within 4Å:- Chain A: R.836, D.846, P.848, P.907, W.909
- Chain B: D.71
3 PLIP interactions:1 interactions with chain B, 2 interactions with chain A- Hydrogen bonds: B:D.71, A:R.836, A:D.846
EDO.12: 3 residues within 4Å:- Chain A: R.719, F.723
- Ligands: PEG.11
No protein-ligand interaction detected (PLIP)EDO.13: 2 residues within 4Å:- Chain A: W.522, N.571
No protein-ligand interaction detected (PLIP)EDO.14: 6 residues within 4Å:- Chain A: K.483, P.556, N.557, Y.559, E.616, H.871
1 PLIP interactions:1 interactions with chain A- Water bridges: A:K.483
EDO.15: 3 residues within 4Å:- Chain A: A.642, E.677, L.680
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:E.677
EDO.16: 5 residues within 4Å:- Chain A: V.87, E.89, R.101, D.103, R.113
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:E.89, A:R.113, A:R.113
EDO.18: 7 residues within 4Å:- Chain A: E.679, R.683, G.782, A.783, V.816, T.817, L.818
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:R.683
- Water bridges: A:G.782, A:A.783
EDO.19: 4 residues within 4Å:- Chain A: T.513, D.518, Y.519, E.520
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:D.518, A:E.520
EDO.21: 5 residues within 4Å:- Chain B: G.90, S.91, Y.103, I.104, L.105
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:G.90
EDO.22: 3 residues within 4Å:- Chain B: C.73, C.75, K.76
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:C.75
EDO.23: 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:S.125, B:G.126, B:T.127
EDO.24: 4 residues within 4Å:- Chain B: P.82, S.91, F.92, H.93
No protein-ligand interaction detected (PLIP)- 7 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
PEG.4: 3 residues within 4Å:- Chain A: S.554, A.555, P.556
No protein-ligand interaction detected (PLIP)PEG.5: 6 residues within 4Å:- Chain A: Q.307, F.673, K.674, H.699, D.701, T.702
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:Q.307, A:K.674
PEG.9: 6 residues within 4Å:- Chain A: V.894, Q.927, K.929, D.959, W.960, S.961
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:K.929
PEG.10: 6 residues within 4Å:- Chain A: E.475, A.478, S.479, R.481
- Chain B: G.112, T.127
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:E.475
PEG.11: 3 residues within 4Å:- Chain A: N.441, R.719
- Ligands: EDO.12
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:N.441
PEG.17: 2 residues within 4Å:- Chain A: G.614, Q.876
No protein-ligand interaction detected (PLIP)PEG.20: 7 residues within 4Å:- Chain B: C.114, D.115, C.116, C.117, C.129, E.130, T.132
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:E.130, B:T.132
- 2 x CA: CALCIUM ION(Non-covalent)
CA.25: 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
CA.26: 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
- 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
- 2021-10-06
- Peptides
- Isoform 2 of Neutral alpha-glucosidase AB: A
Glucosidase 2 subunit beta: B - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.38 Å
- Oligo State
- hetero-1-1-mer
- Ligands
- 1 x WA7: (1S,2S,3R,4S,5S)-1-(hydroxymethyl)-5-[(4-{[2-nitro-4-(triazan-1-yl)phenyl]amino}butyl)amino]cyclohexane-1,2,3,4-tetrol(Non-covalent)
- 4 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- 12 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 7 x PEG: DI(HYDROXYETHYL)ETHER(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
- 2021-10-06
- Peptides
- Isoform 2 of Neutral alpha-glucosidase AB: A
Glucosidase 2 subunit beta: B - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B