- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.20 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x NAI: 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE(Non-covalent)
- 2 x NA: SODIUM ION(Non-functional Binders)
NA.2: 7 residues within 4Å:- Chain A: E.203, T.205, C.207, G.226, I.227, P.228, A.230
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:E.203, A:C.207
- Water bridges: A:A.230
NA.10: 7 residues within 4Å:- Chain B: E.203, T.205, C.207, G.226, I.227, P.228, A.230
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:T.205, B:C.207
- Water bridges: B:T.224
- 2 x MG: MAGNESIUM ION(Non-covalent)
MG.3: 7 residues within 4Å:- Chain A: Y.130, E.246, L.248, G.249, I.250, G.251
- Ligands: NAI.1
2 PLIP interactions:2 interactions with chain A- Metal complexes: A:Y.130, A:E.246
MG.11: 7 residues within 4Å:- Chain B: Y.130, E.246, L.248, G.249, I.250, G.251
- Ligands: NAI.9
2 PLIP interactions:2 interactions with chain B- Metal complexes: B:Y.130, B:E.246
- 2 x PYL: PYRROLYSINE(Non-covalent)
PYL.4: 14 residues within 4Å:- Chain A: A.3, L.4, L.5, P.53, V.54, G.59, I.60, I.61, F.64, A.104, D.105, F.109, N.122
- Ligands: NAI.1
12 PLIP interactions:12 interactions with chain A- Hydrophobic interactions: A:L.5, A:I.61, A:F.64, A:F.109
- Hydrogen bonds: A:L.5, A:V.54, A:I.61, A:I.61, A:A.104
- Water bridges: A:F.64, A:S.65, A:D.105
PYL.12: 14 residues within 4Å:- Chain B: A.3, L.4, L.5, P.53, V.54, G.59, I.60, I.61, F.64, A.104, D.105, F.109, N.122
- Ligands: NAI.9
12 PLIP interactions:12 interactions with chain B- Hydrophobic interactions: B:L.5, B:I.61, B:F.64, B:F.109
- Hydrogen bonds: B:L.5, B:V.54, B:I.61, B:I.61, B:A.104
- Water bridges: B:F.64, B:S.65, B:D.105
- 4 x GOL: GLYCEROL(Non-functional Binders)
GOL.5: 5 residues within 4Å:- Chain A: K.19, A.20, L.243, I.244, A.245
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:R.236, A:A.245
- Water bridges: A:A.20, A:A.245
GOL.6: 2 residues within 4Å:- Chain A: K.33, Y.74
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:K.33
- Water bridges: A:D.21, A:D.21, A:D.31, A:K.33
GOL.13: 5 residues within 4Å:- Chain B: K.19, A.20, L.243, I.244, A.245
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:R.236, B:A.245
- Water bridges: B:A.20, B:A.245
GOL.14: 2 residues within 4Å:- Chain B: K.33, Y.74
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:K.33
- Water bridges: B:D.21, B:D.21, B:D.31, B:K.33
- 2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 2 x PEG: DI(HYDROXYETHYL)ETHER(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
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.20 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x NAI: 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE(Non-covalent)
- 2 x NA: SODIUM ION(Non-functional Binders)
- 2 x MG: MAGNESIUM ION(Non-covalent)
- 2 x PYL: PYRROLYSINE(Non-covalent)
- 4 x GOL: GLYCEROL(Non-functional Binders)
- 2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 2 x PEG: DI(HYDROXYETHYL)ETHER(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
A