- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.30 Å
- Oligo State
- monomer
- Ligands
- 4 x BOG: octyl beta-D-glucopyranoside(Non-covalent)
- 5 x PO4: PHOSPHATE ION(Non-functional Binders)
PO4.5: 5 residues within 4Å:- Chain A: V.310, W.311, W.468, G.474, M.475
No protein-ligand interaction detected (PLIP)PO4.6: 4 residues within 4Å:- Chain A: R.462, A.463, D.464, S.486
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:A.463, A:D.464, A:D.464, A:S.486, A:S.486
PO4.7: 4 residues within 4Å:- Chain A: H.91, R.92, P.93, H.94
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:H.94
- Salt bridges: A:R.92, A:H.94
PO4.8: 4 residues within 4Å:- Chain A: Y.398, R.401, L.402, R.405
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:Y.398, A:R.401
- Salt bridges: A:R.401, A:R.405
PO4.9: 6 residues within 4Å:- Chain A: P.208, W.209, Q.212, L.228, G.277, P.279
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:P.208, A:G.277
- Water bridges: A:Q.212
- 1 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)
FAD.10: 38 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, 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.12
30 PLIP interactions:30 interactions with chain A- Hydrophobic interactions: A:T.41, A:R.317
- Hydrogen bonds: A:G.10, A:G.11, A:G.12, A:I.13, A:N.14, A:N.14, A:A.34, A:A.40, 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:K.354, A:L.355, A:T.356, A:T.356
- Water bridges: A:G.15, A:S.46, A:S.46, A:Y.55, A:G.207, A:Q.212
- pi-Cation interactions: A:K.354
- 2 x IMD: IMIDAZOLE(Non-covalent)
IMD.11: 4 residues within 4Å:- Chain A: H.80, F.83, D.394, R.419
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:D.394
IMD.13: 5 residues within 4Å:- Chain A: S.412, H.416, H.444, E.445, Q.473
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:E.445
- pi-Cation interactions: A:H.444
- 7 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.12: 4 residues within 4Å:- Chain A: A.34, R.171, W.209
- Ligands: FAD.10
No protein-ligand interaction detected (PLIP)EDO.14: 6 residues within 4Å:- Chain A: C.39, S.43, W.311, W.468, R.469
- Ligands: EDO.15
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:S.43, A:R.469
- Water bridges: A:S.43, A:K.472
EDO.15: 3 residues within 4Å:- Chain A: W.311, W.468
- Ligands: EDO.14
No protein-ligand interaction detected (PLIP)EDO.16: 2 residues within 4Å:- Chain A: N.294, T.298
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:N.294
EDO.17: 6 residues within 4Å:- Chain A: R.254, T.271, D.272, V.273, E.288, Y.291
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:R.254, A:R.254, A:D.272
EDO.18: 6 residues within 4Å:- Chain A: M.158, R.161, K.162, W.380, S.384, V.385
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:R.161, A:V.385, A:V.385
EDO.20: 5 residues within 4Å:- Chain A: Q.157, R.161, P.387, N.424
- Ligands: T3A.19
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:Q.157, A:R.161
- 1 x T3A: N-(TRIS(HYDROXYMETHYL)METHYL)-3-AMINOPROPANESULFONIC ACID(Non-covalent)
- 1 x 2PG: 2-PHOSPHOGLYCERIC ACID(Non-covalent)
2PG.21: 10 residues within 4Å:- Chain A: R.54, Y.55, R.254, I.255, F.257, T.270, D.272, R.317, R.332, K.354
13 PLIP interactions:13 interactions with chain A- Hydrogen bonds: A:R.254, A:I.255, A:T.270
- Water bridges: A:S.46, A:R.54, A:Y.55, A:Y.55, A:Y.55
- Salt bridges: A:R.54, A:R.254, A:R.317, A:R.332, A:K.354
- 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 2.30 Å
- Oligo State
- monomer
- Ligands
- 4 x BOG: octyl beta-D-glucopyranoside(Non-covalent)
- 5 x PO4: PHOSPHATE ION(Non-functional Binders)
- 1 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)
- 2 x IMD: IMIDAZOLE(Non-covalent)
- 7 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 1 x T3A: N-(TRIS(HYDROXYMETHYL)METHYL)-3-AMINOPROPANESULFONIC ACID(Non-covalent)
- 1 x 2PG: 2-PHOSPHOGLYCERIC ACID(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