- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.20 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
- 2 x NA: SODIUM ION(Non-functional Binders)
NA.2: 6 residues within 4Å:- Chain A: E.203, T.205, C.207, G.226, P.228, A.230
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:T.205, A:T.205, A:C.207
NA.11: 6 residues within 4Å:- Chain B: E.203, T.205, C.207, G.226, I.227, P.228
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:E.203, B:C.207
- Water bridges: B:A.230
- 2 x MG: MAGNESIUM ION(Non-covalent)
MG.3: 8 residues within 4Å:- Chain A: Y.130, E.246, P.247, L.248, G.249, I.250, G.251
- Ligands: NAD.1
1 PLIP interactions:1 interactions with chain A- Metal complexes: A:E.246
MG.12: 8 residues within 4Å:- Chain B: Y.130, E.246, P.247, L.248, G.249, I.250, G.251
- Ligands: NAD.10
3 PLIP interactions:3 interactions with chain B- Metal complexes: B:Y.130, B:E.246, B:E.246
- 2 x 2YH: N~5~-D-ornithyl-L-ornithine(Non-covalent)
2YH.4: 14 residues within 4Å:- Chain A: L.4, P.53, V.54, G.59, I.60, I.61, F.64, A.104, D.105, D.106, R.107, T.108, N.122, Q.123
14 PLIP interactions:14 interactions with chain A- Hydrophobic interactions: A:L.4, A:I.61, A:F.64
- Hydrogen bonds: A:V.54, A:I.61, A:I.61, A:A.104, A:D.105, A:D.106, A:N.122, A:Q.123
- Water bridges: A:F.64, A:S.65, A:N.122
2YH.13: 13 residues within 4Å:- Chain B: L.4, P.53, V.54, G.59, I.60, I.61, F.64, A.104, D.105, D.106, R.107, T.108, Q.123
10 PLIP interactions:10 interactions with chain B- Hydrophobic interactions: B:I.61, B:F.64
- Hydrogen bonds: B:V.54, B:I.61, B:I.61, B:A.104, B:D.106, B:Q.123
- Water bridges: B:F.64, B:K.152
- 2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 2 x GOL: GLYCEROL(Non-functional Binders)
GOL.7: 6 residues within 4Å:- Chain A: F.80, V.81, T.82, D.83, E.92, N.96
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:D.83, A:D.83, A:E.92
GOL.14: 5 residues within 4Å:- Chain B: A.20, R.236, L.243, I.244, A.245
6 PLIP interactions:6 interactions with chain B- Hydrogen bonds: B:R.236, B:L.243, B:A.245, B:A.245
- Water bridges: B:A.20, B:A.23
- 2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.8: 6 residues within 4Å:- Chain A: L.10, N.12, I.13, N.63, A.66, S.67
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:L.10, A:N.12, A:I.13, A:A.66
- Water bridges: A:N.14
EDO.9: 4 residues within 4Å:- Chain A: K.19, A.20, L.243, A.245
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:L.243, A:A.245
- Water bridges: A:A.245, A:A.245
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Quitterer, F. et al., The Formation of Pyrroline and Tetrahydropyridine Rings in Amino Acids Catalyzed by Pyrrolysine Synthase (PylD). Angew.Chem.Int.Ed.Engl. (2014)
- Release Date
- 2014-04-23
- Peptides
- PYLD, pyrrolysine synthase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.20 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)
- 2 x NA: SODIUM ION(Non-functional Binders)
- 2 x MG: MAGNESIUM ION(Non-covalent)
- 2 x 2YH: N~5~-D-ornithyl-L-ornithine(Non-covalent)
- 2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)
- 2 x GOL: GLYCEROL(Non-functional Binders)
- 2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Quitterer, F. et al., The Formation of Pyrroline and Tetrahydropyridine Rings in Amino Acids Catalyzed by Pyrrolysine Synthase (PylD). Angew.Chem.Int.Ed.Engl. (2014)
- Release Date
- 2014-04-23
- Peptides
- PYLD, pyrrolysine synthase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
B