- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.90 Å
- Oligo State
- homo-dimer
- Ligands
- 4 x MG: MAGNESIUM ION(Non-covalent)
- 2 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)
ATP.3: 20 residues within 4Å:- Chain A: R.167, E.169, E.174, H.175, L.176, F.179, M.181, E.233, L.234, S.235, S.236, G.258, F.259, G.260, R.263, I.274
- Ligands: MG.1, MG.2, EDO.13, CCL.14
20 PLIP interactions:20 interactions with chain A- Hydrogen bonds: A:E.169, A:L.176, A:E.233, A:E.233, A:S.236, A:S.236, A:G.260, A:R.263
- Water bridges: A:R.167, A:R.167, A:R.167, A:H.175, A:S.236
- Salt bridges: A:R.167, A:R.167, A:H.175, A:R.263
- pi-Stacking: A:F.179, A:F.179
- pi-Cation interactions: A:R.263
ATP.17: 20 residues within 4Å:- Chain B: R.167, E.169, E.174, H.175, L.176, F.179, M.181, E.233, L.234, S.235, S.236, G.258, F.259, G.260, R.263, I.274
- Ligands: MG.15, MG.16, EDO.27, CCL.28
20 PLIP interactions:20 interactions with chain B- Hydrogen bonds: B:E.169, B:L.176, B:E.233, B:E.233, B:S.236, B:S.236, B:G.260, B:R.263
- Water bridges: B:R.167, B:R.167, B:R.167, B:H.175, B:S.236
- Salt bridges: B:R.167, B:R.167, B:H.175, B:R.263
- pi-Stacking: B:F.179, B:F.179
- pi-Cation interactions: B:R.263
- 20 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.4: 8 residues within 4Å:- Chain A: N.78, R.276, A.277, A.278, Y.283, Y.284, N.285, G.286
Ligand excluded by PLIPEDO.5: 7 residues within 4Å:- Chain A: Y.79, K.82, L.83, E.86, L.265, K.268, H.269
Ligand excluded by PLIPEDO.6: 4 residues within 4Å:- Chain A: D.210, H.229, G.230
- Ligands: EDO.8
Ligand excluded by PLIPEDO.7: 1 residues within 4Å:- Chain A: E.194
Ligand excluded by PLIPEDO.8: 7 residues within 4Å:- Chain A: D.210, F.211, K.212, M.228, H.229, G.230
- Ligands: EDO.6
Ligand excluded by PLIPEDO.9: 2 residues within 4Å:- Chain A: S.62
- Ligands: EDO.10
Ligand excluded by PLIPEDO.10: 5 residues within 4Å:- Chain A: S.58, L.61, S.62, K.65
- Ligands: EDO.9
Ligand excluded by PLIPEDO.11: 7 residues within 4Å:- Chain A: R.147, D.150, M.187, G.249, I.250, D.251, K.252
Ligand excluded by PLIPEDO.12: 4 residues within 4Å:- Chain A: L.176, E.177, E.178, A.278
Ligand excluded by PLIPEDO.13: 7 residues within 4Å:- Chain A: E.174, H.175, D.231, L.232, E.233, R.263
- Ligands: ATP.3
Ligand excluded by PLIPEDO.18: 8 residues within 4Å:- Chain B: N.78, R.276, A.277, A.278, Y.283, Y.284, N.285, G.286
Ligand excluded by PLIPEDO.19: 7 residues within 4Å:- Chain B: Y.79, K.82, L.83, E.86, L.265, K.268, H.269
Ligand excluded by PLIPEDO.20: 4 residues within 4Å:- Chain B: D.210, H.229, G.230
- Ligands: EDO.22
Ligand excluded by PLIPEDO.21: 1 residues within 4Å:- Chain B: E.194
Ligand excluded by PLIPEDO.22: 7 residues within 4Å:- Chain B: D.210, F.211, K.212, M.228, H.229, G.230
- Ligands: EDO.20
Ligand excluded by PLIPEDO.23: 2 residues within 4Å:- Chain B: S.62
- Ligands: EDO.24
Ligand excluded by PLIPEDO.24: 5 residues within 4Å:- Chain B: S.58, L.61, S.62, K.65
- Ligands: EDO.23
Ligand excluded by PLIPEDO.25: 7 residues within 4Å:- Chain B: R.147, D.150, M.187, G.249, I.250, D.251, K.252
Ligand excluded by PLIPEDO.26: 4 residues within 4Å:- Chain B: L.176, E.177, E.178, A.278
Ligand excluded by PLIPEDO.27: 7 residues within 4Å:- Chain B: E.174, H.175, D.231, L.232, E.233, R.263
- Ligands: ATP.17
Ligand excluded by PLIP- 2 x CCL: N~6~-[(CYCLOPENTYLOXY)CARBONYL]-D-LYSINE(Non-covalent)
CCL.14: 14 residues within 4Å:- Chain A: M.137, A.139, L.142, Y.143, N.183, F.184, C.185, S.236, V.238, W.254, G.256, A.257, G.258
- Ligands: ATP.3
5 PLIP interactions:5 interactions with chain A- Hydrophobic interactions: A:L.142, A:Y.143, A:W.254
- Hydrogen bonds: A:N.183
- Water bridges: A:S.236
CCL.28: 14 residues within 4Å:- Chain B: M.137, A.139, L.142, Y.143, N.183, F.184, C.185, S.236, V.238, W.254, G.256, A.257, G.258
- Ligands: ATP.17
5 PLIP interactions:5 interactions with chain B- Hydrophobic interactions: B:L.142, B:Y.143, B:W.254
- Hydrogen bonds: B:N.183
- Water bridges: B:S.236
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Kavran, J.M. et al., Structure of pyrrolysyl-tRNA synthetase, an archaeal enzyme for genetic code innovation. Proc.Natl.Acad.Sci.Usa (2007)
- Release Date
- 2007-07-24
- Peptides
- Pyrrolysyl-tRNA synthetase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.90 Å
- Oligo State
- homo-dimer
- Ligands
- 4 x MG: MAGNESIUM ION(Non-covalent)
- 2 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)
- 20 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 2 x CCL: N~6~-[(CYCLOPENTYLOXY)CARBONYL]-D-LYSINE(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Kavran, J.M. et al., Structure of pyrrolysyl-tRNA synthetase, an archaeal enzyme for genetic code innovation. Proc.Natl.Acad.Sci.Usa (2007)
- Release Date
- 2007-07-24
- Peptides
- Pyrrolysyl-tRNA synthetase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A