- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.96 Å
- Oligo State
- monomer
- Ligands
- 2 x BOG: octyl beta-D-glucopyranoside(Non-covalent)
- 1 x PO4: PHOSPHATE ION(Non-functional Binders)
- 1 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)
FAD.4: 40 residues within 4Å:- Chain A: I.9, G.10, G.11, G.12, I.13, N.14, L.32, E.33, A.34, C.39, A.40, T.41, S.42, A.44, S.45, S.46, K.47, L.48, H.50, T.170, R.171, A.172, A.205, T.206, G.207, P.208, W.209, F.213, G.231, H.233, T.270, G.315, V.316, R.317, G.353, K.354, L.355, T.356
- Ligands: EDO.7, EDO.18
26 PLIP interactions:26 interactions with chain A- Hydrophobic interactions: A:T.41, A:T.270, A:R.317
- Hydrogen bonds: A:G.11, A:N.14, A:N.14, A:A.34, A:T.41, A:T.41, A:S.42, A:S.42, A:S.46, A:L.48, A:L.48, A:A.172, A:A.172, A:L.355, A:T.356, A:T.356
- Water bridges: A:A.40, A:A.40, A:S.46, A:S.46, A:G.207, A:Q.212
- pi-Cation interactions: A:K.354
- 15 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.5: 5 residues within 4Å:- Chain A: D.252, R.254, T.271, D.272, Q.328
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:D.272
- Water bridges: A:D.252
EDO.6: 5 residues within 4Å:- Chain A: L.293, N.294, N.297, T.298
- Ligands: EDO.20
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:N.294, A:N.297, A:T.298, A:T.298
EDO.7: 4 residues within 4Å:- Chain A: A.34, R.171, W.209
- Ligands: FAD.4
No protein-ligand interaction detected (PLIP)EDO.8: 3 residues within 4Å:- Chain A: W.311, D.464, W.468
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:W.311
EDO.9: 4 residues within 4Å:- Chain A: S.43, W.311, W.468, R.469
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:S.43, A:R.469
- Water bridges: A:K.472
EDO.10: 7 residues within 4Å:- Chain A: M.262, H.416, T.471, K.472, Q.473, W.476
- Ligands: EDO.11
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:H.416, A:K.472
EDO.11: 5 residues within 4Å:- Chain A: H.416, H.444, E.445, Q.473
- Ligands: EDO.10
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:H.416, A:H.444, A:Q.473
EDO.12: 2 residues within 4Å:- Chain A: I.289, R.306
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:R.306, A:R.306, A:R.306
EDO.13: 5 residues within 4Å:- Chain A: P.208, Q.212, L.228, G.277, P.279
No protein-ligand interaction detected (PLIP)EDO.14: 6 residues within 4Å:- Chain A: V.455, D.456, H.457, E.458, W.459
- Ligands: TAM.15
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:V.455, A:W.459
EDO.16: 7 residues within 4Å:- Chain A: A.40, T.41, P.279, K.280, V.282, G.315, V.316
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:K.280, A:K.280, A:V.316, A:V.316
EDO.17: 3 residues within 4Å:- Chain A: F.265, V.310, M.475
No protein-ligand interaction detected (PLIP)EDO.18: 7 residues within 4Å:- Chain A: R.171, A.172, T.173, F.213, D.216, G.217
- Ligands: FAD.4
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:R.171, A:Q.212
EDO.20: 2 residues within 4Å:- Chain A: Q.303
- Ligands: EDO.6
No protein-ligand interaction detected (PLIP)EDO.21: 1 residues within 4Å:- Chain A: E.383
No protein-ligand interaction detected (PLIP)- 1 x TAM: TRIS(HYDROXYETHYL)AMINOMETHANE(Non-covalent)
- 1 x 13P: 1,3-DIHYDROXYACETONEPHOSPHATE(Non-covalent)
- 1 x IMD: IMIDAZOLE(Non-covalent)
- 2 x BCN: BICINE(Non-covalent)
BCN.23: 5 residues within 4Å:- Chain A: D.272, V.273, E.274, P.327
- Ligands: BCN.24
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:E.274
BCN.24: 3 residues within 4Å:- Chain A: E.285, S.287
- Ligands: BCN.23
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:S.287
- Water bridges: A:E.285, A:E.285
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Yeh, J.I. et al., Structure of glycerol-3-phosphate dehydrogenase, an essential monotopic membrane enzyme involved in respiration and metabolism. Proc.Natl.Acad.Sci.Usa (2008)
- Release Date
- 2008-06-03
- Peptides
- Aerobic glycerol-3-phosphate dehydrogenase: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.96 Å
- Oligo State
- monomer
- Ligands
- 2 x BOG: octyl beta-D-glucopyranoside(Non-covalent)
- 1 x PO4: PHOSPHATE ION(Non-functional Binders)
- 1 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)
- 15 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 1 x TAM: TRIS(HYDROXYETHYL)AMINOMETHANE(Non-covalent)
- 1 x 13P: 1,3-DIHYDROXYACETONEPHOSPHATE(Non-covalent)
- 1 x IMD: IMIDAZOLE(Non-covalent)
- 2 x BCN: BICINE(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Yeh, J.I. et al., Structure of glycerol-3-phosphate dehydrogenase, an essential monotopic membrane enzyme involved in respiration and metabolism. Proc.Natl.Acad.Sci.Usa (2008)
- Release Date
- 2008-06-03
- Peptides
- Aerobic glycerol-3-phosphate dehydrogenase: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
B