- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.75 Å
- Oligo State
- monomer
- Ligands
- 4 x BOG: octyl beta-D-glucopyranoside(Non-covalent)
- 2 x SO4: SULFATE ION(Non-functional Binders)
SO4.5: 5 residues within 4Å:- Chain A: V.310, W.311, W.468, G.474, M.475
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:M.475
SO4.6: 4 residues within 4Å:- Chain A: H.80, F.83, D.394, R.419
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:H.80
- Water bridges: A:R.419
- Salt bridges: A:R.419
- 1 x PO4: PHOSPHATE ION(Non-functional Binders)
- 1 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)
FAD.8: 39 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.10
28 PLIP interactions:28 interactions with chain A- Hydrophobic interactions: A:T.41, A:R.317
- Hydrogen bonds: A:G.11, A:I.13, A:N.14, A:N.14, A:A.34, A:A.40, A:T.41, A:S.42, A:S.42, A:S.46, A:L.48, A:L.48, A:H.50, A:A.172, A:A.172, A:K.354, A:L.355, A:T.356
- Water bridges: A:G.12, A:G.12, A:A.38, A:A.38, A:S.46, A:S.46, A:G.207
- pi-Cation interactions: A:K.354
- 2 x TAM: TRIS(HYDROXYETHYL)AMINOMETHANE(Non-covalent)
TAM.9: 5 residues within 4Å:- Chain A: A.23, G.24, G.26, K.162, W.380
2 PLIP interactions:2 interactions with chain A- Hydrophobic interactions: A:K.162
- Hydrogen bonds: A:G.26
TAM.27: 7 residues within 4Å:- Chain A: D.272, V.273, E.274, E.285, S.287, E.288
- Ligands: EDO.21
6 PLIP interactions:6 interactions with chain A- Hydrophobic interactions: A:V.273, A:V.273
- Hydrogen bonds: A:E.274, A:E.285, A:S.287, A:S.287
- 15 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.10: 6 residues within 4Å:- Chain A: A.34, C.39, R.171, W.209, K.280
- Ligands: FAD.8
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:R.171, A:R.171
EDO.12: 7 residues within 4Å:- Chain A: S.43, W.311, Y.313, W.468, R.469, K.472
- Ligands: EDO.16
3 PLIP interactions:3 interactions with chain A- Water bridges: A:S.43, A:S.43, A:K.472
EDO.13: 3 residues within 4Å:- Chain A: N.297, Q.303
- Ligands: EDO.19
1 PLIP interactions:1 interactions with chain A- Water bridges: A:N.297
EDO.14: 2 residues within 4Å:- Chain A: R.306, I.309
No protein-ligand interaction detected (PLIP)EDO.15: 7 residues within 4Å:- Chain A: M.262, H.416, T.471, K.472, Q.473, W.476
- Ligands: IMD.11
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:K.472
EDO.16: 3 residues within 4Å:- Chain A: W.311, W.468
- Ligands: EDO.12
No protein-ligand interaction detected (PLIP)EDO.17: 2 residues within 4Å:- Chain A: G.439, E.448
No protein-ligand interaction detected (PLIP)EDO.18: 2 residues within 4Å:- Chain A: E.440, D.441
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:D.441
EDO.19: 6 residues within 4Å:- Chain A: K.132, N.294, N.297, T.298
- Ligands: EDO.13, EDO.20
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:K.132, A:N.294
- Water bridges: A:L.293, A:Q.303
EDO.20: 3 residues within 4Å:- Chain A: N.294, T.298
- Ligands: EDO.19
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:N.294, A:N.294
EDO.21: 6 residues within 4Å:- Chain A: R.254, T.271, D.272, V.273, Y.291
- Ligands: TAM.27
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:D.272
EDO.22: 7 residues within 4Å:- Chain A: A.40, T.41, P.279, K.280, V.282, G.315, V.316
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:T.41, A:P.279, A:V.316
EDO.23: 2 residues within 4Å:- Chain A: D.397, R.404
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:D.397
EDO.24: 4 residues within 4Å:- Chain A: D.397, A.400, R.401, R.404
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:D.397, A:D.397
- Water bridges: A:R.404
EDO.26: 6 residues within 4Å:- Chain A: Q.157, V.160, D.456, H.457, W.459
- Ligands: IMD.25
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:H.457
- 2 x IMD: IMIDAZOLE(Non-covalent)
IMD.11: 6 residues within 4Å:- Chain A: S.412, H.416, H.444, E.445, Q.473
- Ligands: EDO.15
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:E.445, A:Q.473
- pi-Cation interactions: A:H.444
IMD.25: 6 residues within 4Å:- Chain A: Q.157, N.424, L.427, Y.453, H.457
- Ligands: EDO.26
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:N.424, A:Y.453
- 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
- 2008-04-15
- Peptides
- Aerobic glycerol-3-phosphate dehydrogenase: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.75 Å
- Oligo State
- monomer
- Ligands
- 4 x BOG: octyl beta-D-glucopyranoside(Non-covalent)
- 2 x SO4: SULFATE ION(Non-functional Binders)
- 1 x PO4: PHOSPHATE ION(Non-functional Binders)
- 1 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)
- 2 x TAM: TRIS(HYDROXYETHYL)AMINOMETHANE(Non-covalent)
- 15 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 2 x IMD: IMIDAZOLE(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
- 2008-04-15
- Peptides
- Aerobic glycerol-3-phosphate dehydrogenase: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
A