- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.30 Å
- Oligo State
- hetero-1-1-mer
- Ligands
- 1 x W9P: (1~{S},2~{S},3~{R},4~{S},5~{S})-1-(hydroxymethyl)-5-[6-[[2-[oxidanyl(oxidanylidene)-$l^{4}-azanyl]-4-(1,2,3,4-tetrazol-1-yl)phenyl]amino]hexylamino]cyclohexane-1,2,3,4-tetrol(Non-covalent)
- 15 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.2: 6 residues within 4Å:- Chain A: Y.737, Q.738, K.741, E.742, E.864, L.883
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:E.742, A:E.864
EDO.3: 6 residues within 4Å:- Chain A: F.731, T.734, I.830, P.832, G.863, E.864
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:T.734, A:I.830, A:E.864
EDO.4: 5 residues within 4Å:- Chain A: A.401, S.402, T.406, K.741
- Ligands: EDO.5
No protein-ligand interaction detected (PLIP)EDO.5: 3 residues within 4Å:- Chain A: T.406, H.740
- Ligands: EDO.4
1 PLIP interactions:1 interactions with chain A- Water bridges: A:T.406
EDO.8: 2 residues within 4Å:- Chain A: R.288, S.348
No protein-ligand interaction detected (PLIP)EDO.10: 3 residues within 4Å:- Chain A: W.909, K.951
- Chain B: D.70
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:K.951, A:K.951
EDO.11: 5 residues within 4Å:- Chain A: I.52, P.58, Y.59, H.79, M.175
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:Y.59
EDO.12: 2 residues within 4Å:- Chain A: Q.753
- Ligands: EDO.13
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:Q.753
EDO.13: 3 residues within 4Å:- Chain A: F.394, R.398
- Ligands: EDO.12
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:R.398, A:R.398
EDO.15: 6 residues within 4Å:- Chain A: R.499, E.503, W.541, N.544, M.545, N.550
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:R.499, A:W.541, A:N.550
EDO.16: 6 residues within 4Å:- Chain A: K.290, V.291, T.292, E.296, Y.298, P.313
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:E.296, A:E.296
EDO.17: 1 residues within 4Å:- Chain A: K.95
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:K.95
EDO.18: 5 residues within 4Å:- Chain A: R.836, D.846, P.848, W.909
- Chain B: D.71
3 PLIP interactions:2 interactions with chain A, 1 interactions with chain B- Hydrogen bonds: A:R.836, A:D.846, B:D.71
EDO.19: 4 residues within 4Å:- Chain A: E.89, R.101, D.103, R.113
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:E.89, A:R.101, A:R.113, A:R.113
EDO.23: 3 residues within 4Å:- Chain B: C.73, D.74, K.76
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:C.73
- 2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- 3 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
PEG.9: 4 residues within 4Å:- Chain A: Y.112, R.113, Y.584, W.587
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:R.113
- Water bridges: A:Y.112
PEG.14: 3 residues within 4Å:- Chain A: D.780, G.785, Q.787
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:D.780
PEG.20: 8 residues within 4Å:- Chain A: R.878, H.879, E.880, K.901, G.902, H.903, L.904, E.905
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:H.903
- 2 x CA: CALCIUM ION(Non-covalent)
CA.21: 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.22: 6 residues within 4Å:- Chain B: R.108, D.111, V.113, D.115, D.121, E.122
5 PLIP interactions:5 interactions with chain B- Metal complexes: B:R.108, 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 W9P: (1~{S},2~{S},3~{R},4~{S},5~{S})-1-(hydroxymethyl)-5-[6-[[2-[oxidanyl(oxidanylidene)-$l^{4}-azanyl]-4-(1,2,3,4-tetrazol-1-yl)phenyl]amino]hexylamino]cyclohexane-1,2,3,4-tetrol(Non-covalent)
- 15 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)
- 3 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
- 2021-09-29
- Peptides
- Alpha glucosidase 2 alpha neutral subunit: A
Glucosidase 2 subunit beta: B - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B