- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.23 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)
- 2 x K: POTASSIUM ION(Non-covalent)
K.2: 6 residues within 4Å:- Chain A: D.138, D.181, N.185, A.254, H.259
- Ligands: 13P.4
3 PLIP interactions:3 interactions with chain A- Metal complexes: A:D.138, A:D.181, A:A.254
K.9: 7 residues within 4Å:- Chain B: D.138, D.181, S.184, N.185, A.254, H.259
- Ligands: 13P.11
3 PLIP interactions:3 interactions with chain B- Metal complexes: B:D.138, B:D.181, B:A.254
- 2 x ZN: ZINC ION(Non-covalent)
ZN.3: 5 residues within 4Å:- Chain A: D.138, D.181, H.259, H.280
- Ligands: 13P.4
4 PLIP interactions:3 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:D.181, A:H.259, A:H.280, H2O.1
ZN.10: 6 residues within 4Å:- Chain B: D.138, D.181, H.259, H.280
- Ligands: NDP.8, 13P.11
4 PLIP interactions:3 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:D.181, B:H.259, B:H.280, H2O.4
- 2 x 13P: 1,3-DIHYDROXYACETONEPHOSPHATE(Non-covalent)
13P.4: 13 residues within 4Å:- Chain A: D.138, S.151, D.181, S.251, A.254, S.255, H.259, H.263, H.280, R.343
- Ligands: NDP.1, K.2, ZN.3
13 PLIP interactions:13 interactions with chain A- Hydrogen bonds: A:D.138, A:S.151, A:S.151, A:S.251, A:S.255
- Water bridges: A:D.138, A:S.151, A:H.263, A:R.343, A:R.343, A:R.345
- Salt bridges: A:H.263, A:R.343
13P.11: 13 residues within 4Å:- Chain B: D.138, S.146, S.151, S.251, A.254, S.255, H.259, H.263, H.280, R.343
- Ligands: NDP.8, K.9, ZN.10
9 PLIP interactions:9 interactions with chain B- Hydrogen bonds: B:D.138, B:Q.149, B:S.151, B:S.251, B:S.255
- Water bridges: B:D.138, B:S.255
- Salt bridges: B:H.263, B:R.343
- 7 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.5: 3 residues within 4Å:- Chain A: R.172, S.176, V.316
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:S.176
EDO.6: 4 residues within 4Å:- Chain A: E.201, K.202, S.250, R.252
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:K.202, A:S.250
- Water bridges: A:R.252, A:R.345
EDO.7: 5 residues within 4Å:- Chain A: I.35, I.36
- Chain B: T.42, I.43, I.44
3 PLIP interactions:1 interactions with chain B, 2 interactions with chain A- Hydrogen bonds: B:I.44, A:I.35, A:I.35
EDO.12: 4 residues within 4Å:- Chain B: C.76, R.77, F.78, F.79
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:C.76, B:R.77
EDO.13: 8 residues within 4Å:- Chain B: I.36, V.37, P.143, M.153, V.154, A.156, A.246, N.249
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:V.37, B:V.154, B:A.156, B:N.249
EDO.14: 2 residues within 4Å:- Chain B: K.212, L.302
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:K.212
EDO.15: 2 residues within 4Å:- Chain B: K.236, G.240
No protein-ligand interaction detected (PLIP)- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Carbone, V. et al., Structure and Evolution of the Archaeal Lipid Synthesis Enzyme sn-Glycerol-1-phosphate Dehydrogenase. J.Biol.Chem. (2015)
- Release Date
- 2015-07-22
- Peptides
- Glycerol-1-phosphate dehydrogenase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
CB
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.23 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)
- 2 x K: POTASSIUM ION(Non-covalent)
- 2 x ZN: ZINC ION(Non-covalent)
- 2 x 13P: 1,3-DIHYDROXYACETONEPHOSPHATE(Non-covalent)
- 7 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Carbone, V. et al., Structure and Evolution of the Archaeal Lipid Synthesis Enzyme sn-Glycerol-1-phosphate Dehydrogenase. J.Biol.Chem. (2015)
- Release Date
- 2015-07-22
- Peptides
- Glycerol-1-phosphate dehydrogenase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
CB
D