- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.37 Å
- Oligo State
- hetero-1-1-mer
- Ligands
- 2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)(Non-functional Binders)
- 3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.3: 1 residues within 4Å:- Chain A: T.357
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:T.357
EDO.4: 5 residues within 4Å:- Chain A: E.395, W.433, N.436, M.437, N.442
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:W.433
EDO.5: 6 residues within 4Å:- Chain A: D.612, Q.616, Q.693, S.711, S.712, I.713
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:Q.616, A:I.713
- 10 x FMT: FORMIC ACID(Non-functional Binders)
FMT.6: 5 residues within 4Å:- Chain A: Y.646, E.648, D.649, G.684, Q.685
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:Q.685
- Water bridges: A:Q.685
FMT.7: 6 residues within 4Å:- Chain A: F.615, M.727, R.728, V.729
- Chain B: P.42, S.61
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:V.729
- Water bridges: A:M.727
FMT.8: 6 residues within 4Å:- Chain A: A.534, E.535, W.536, P.568, E.569, L.572
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:E.569
- Water bridges: A:W.536
FMT.9: 5 residues within 4Å:- Chain A: I.692, Q.693, R.725, M.727, F.744
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:Q.693
- Water bridges: A:Y.695, A:Y.695
FMT.10: 3 residues within 4Å:- Chain A: T.298, H.632, K.633
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:K.633
FMT.11: 6 residues within 4Å:- Chain A: Y.690, Y.695, Q.696, K.697, T.836, S.837
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:Q.696, A:K.697
FMT.12: 6 residues within 4Å:- Chain A: R.141, L.143, E.204, D.256, S.258, R.267
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:R.141, A:R.141
- Water bridges: A:R.19, A:R.267
FMT.13: 2 residues within 4Å:- Chain A: F.462, V.467
No protein-ligand interaction detected (PLIP)FMT.14: 5 residues within 4Å:- Chain A: R.718, G.720, S.748, Q.750, T.752
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:R.718, A:R.718, A:S.748, A:S.748, A:T.752
FMT.19: 11 residues within 4Å:- Chain A: F.14, R.17, E.147, K.169, G.172, P.173, T.174, S.175, E.271, S.272, R.482
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:R.17, A:T.174, A:E.271
- Water bridges: A:F.14, A:F.14
- 4 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
PG4.15: 3 residues within 4Å:- Chain A: V.817, E.825, R.827
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:E.825, A:E.825, A:R.827
PG4.16: 5 residues within 4Å:- Chain A: N.333, R.611, D.612, F.615
- Ligands: PG4.23
No protein-ligand interaction detected (PLIP)PG4.23: 10 residues within 4Å:- Chain A: Q.327, D.330, D.331, H.332, N.333, R.731
- Chain B: L.59, R.62, D.69
- Ligands: PG4.16
4 PLIP interactions:3 interactions with chain B, 1 interactions with chain A- Hydrogen bonds: B:R.62, B:D.69, B:D.69, A:D.331
PG4.26: 7 residues within 4Å:- Chain A: Q.831, I.840
- Chain B: C.27, D.28, C.29, K.30, P.42
No protein-ligand interaction detected (PLIP)- 3 x P6G: HEXAETHYLENE GLYCOL(Non-functional Binders)
P6G.17: 15 residues within 4Å:- Chain A: R.17, Q.18, S.20, I.21, L.25, S.26, P.27, Y.28, H.48, V.50, G.142, M.144, A.145, F.146, E.147
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:H.48
P6G.18: 8 residues within 4Å:- Chain A: P.79, R.80, Y.81, R.82, P.84, Y.476, G.477, W.479
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:W.479
P6G.22: 7 residues within 4Å:- Chain A: S.651, S.654, I.655, E.656, D.657, Y.681, T.703
1 PLIP interactions:1 interactions with chain A- Water bridges: A:D.657
- 1 x OXM: OXAMIC ACID(Non-covalent)
- 1 x GLC: alpha-D-glucopyranose(Non-covalent)
GLC.21: 16 residues within 4Å:- Chain A: W.314, D.342, I.343, I.379, W.416, W.453, D.455, M.456, R.515, W.528, G.530, D.531, D.560, F.564, R.587, H.589
11 PLIP interactions:11 interactions with chain A- Hydrogen bonds: A:D.342, A:D.342, A:W.416, A:D.455, A:R.515, A:D.531, A:D.531, A:H.589
- Water bridges: A:W.528, A:D.531
- Salt bridges: A:R.515
- 2 x CA: CALCIUM ION(Non-covalent)
CA.24: 8 residues within 4Å:- Chain A: R.842
- Chain B: Q.21, D.24, Y.26, C.27, D.28, D.34, E.35
6 PLIP interactions:6 interactions with chain B- Metal complexes: B:Q.21, B:D.24, B:Y.26, B:D.28, B:D.34, B:E.35
CA.25: 7 residues within 4Å:- Chain B: R.62, N.64, D.65, V.67, D.69, D.75, E.76
6 PLIP interactions:6 interactions with chain B- Metal complexes: B:R.62, B:D.65, B:V.67, B:D.69, B:D.75, B:E.76
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Caputo, A.T. et al., Structures of mammalian ER alpha-glucosidase II capture the binding modes of broad-spectrum iminosugar antivirals. Proc.Natl.Acad.Sci.USA (2016)
- Release Date
- 2016-07-27
- Peptides
- 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 2.37 Å
- Oligo State
- hetero-1-1-mer
- Ligands
- 2 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)(Non-functional Binders)
- 3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 10 x FMT: FORMIC ACID(Non-functional Binders)
- 4 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)
- 3 x P6G: HEXAETHYLENE GLYCOL(Non-functional Binders)
- 1 x OXM: OXAMIC ACID(Non-covalent)
- 1 x GLC: alpha-D-glucopyranose(Non-covalent)
- 2 x CA: CALCIUM ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Caputo, A.T. et al., Structures of mammalian ER alpha-glucosidase II capture the binding modes of broad-spectrum iminosugar antivirals. Proc.Natl.Acad.Sci.USA (2016)
- Release Date
- 2016-07-27
- Peptides
- Neutral alpha-glucosidase AB: A
Glucosidase 2 subunit beta: B - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B