- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.14 Å
- Oligo State
- homo-dimer
- Ligands
- 6 x MG: MAGNESIUM ION(Non-covalent)
- 2 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)
ATP.4: 19 residues within 4Å:- Chain A: R.167, E.169, H.175, L.176, F.179, M.181, E.233, L.234, S.235, S.236, G.258, G.260, R.263, I.274
- Ligands: MG.1, MG.2, MG.3, 33S.5, EDO.11
24 PLIP interactions:24 interactions with chain A- Hydrogen bonds: A:E.169, A:L.176, A:E.233, A:E.233, A:S.236, A:G.260, A:R.263
- Water bridges: A:Q.124, A:R.167, A:R.167, A:R.167, A:R.167, A:E.233, A:S.236, A:S.236, 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, A:R.263
ATP.16: 19 residues within 4Å:- Chain B: R.167, E.169, H.175, L.176, F.179, M.181, E.233, L.234, S.235, S.236, G.258, G.260, R.263, I.274
- Ligands: MG.13, MG.14, MG.15, 33S.17, EDO.23
24 PLIP interactions:24 interactions with chain B- Hydrogen bonds: B:E.169, B:L.176, B:E.233, B:E.233, B:S.236, B:G.260, B:R.263
- Water bridges: B:Q.124, B:R.167, B:R.167, B:R.167, B:R.167, B:E.233, B:S.236, B:S.236, 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, B:R.263
- 2 x 33S: 3-iodo-L-phenylalanine(Non-covalent)
33S.5: 11 residues within 4Å:- Chain A: M.137, R.167, S.183, I.185, S.236, V.238, W.254, G.256, A.257, G.258
- Ligands: ATP.4
3 PLIP interactions:3 interactions with chain A- Hydrophobic interactions: A:V.238, A:W.254
- Salt bridges: A:R.167
33S.17: 11 residues within 4Å:- Chain B: M.137, R.167, S.183, I.185, S.236, V.238, W.254, G.256, A.257, G.258
- Ligands: ATP.16
3 PLIP interactions:3 interactions with chain B- Hydrophobic interactions: B:V.238, B:W.254
- Salt bridges: B:R.167
- 14 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.6: 8 residues within 4Å:- Chain A: N.78, R.276, A.277, A.278, Y.283, Y.284, N.285, G.286
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:N.78, A:N.78, A:R.276, A:N.285, A:G.286
EDO.7: 7 residues within 4Å:- Chain A: Y.79, K.82, L.83, E.86, L.265, K.268, H.269
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:E.86, A:K.268, A:H.269
EDO.8: 5 residues within 4Å:- Chain A: R.89, F.90, D.93, R.94, H.206
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:R.94, A:R.94
- Water bridges: A:F.90, A:H.206
EDO.9: 5 residues within 4Å:- Chain A: D.210, F.211, K.212, H.229, G.230
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:D.210, A:D.210, A:K.212, A:K.212, A:G.230
EDO.10: 7 residues within 4Å:- Chain A: R.147, D.150, M.187, G.249, I.250, D.251, K.252
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:D.150, A:D.251, A:D.251
- Water bridges: A:D.150
EDO.11: 7 residues within 4Å:- Chain A: E.174, H.175, D.231, L.232, E.233, R.263
- Ligands: ATP.4
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:H.175, A:D.231, A:E.233, A:R.263, A:R.263
EDO.12: 1 residues within 4Å:- Chain A: E.194
No protein-ligand interaction detected (PLIP)EDO.18: 8 residues within 4Å:- Chain B: N.78, R.276, A.277, A.278, Y.283, Y.284, N.285, G.286
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:N.78, B:N.78, B:R.276, B:N.285, B:G.286
EDO.19: 7 residues within 4Å:- Chain B: Y.79, K.82, L.83, E.86, L.265, K.268, H.269
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:E.86, B:K.268, B:H.269
EDO.20: 5 residues within 4Å:- Chain B: R.89, F.90, D.93, R.94, H.206
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:R.94, B:R.94
- Water bridges: B:F.90, B:H.206
EDO.21: 5 residues within 4Å:- Chain B: D.210, F.211, K.212, H.229, G.230
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:D.210, B:D.210, B:K.212, B:K.212, B:G.230
EDO.22: 7 residues within 4Å:- Chain B: R.147, D.150, M.187, G.249, I.250, D.251, K.252
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:D.150, B:D.251, B:D.251
- Water bridges: B:D.150
EDO.23: 7 residues within 4Å:- Chain B: E.174, H.175, D.231, L.232, E.233, R.263
- Ligands: ATP.16
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:H.175, B:D.231, B:E.233, B:R.263, B:R.263
EDO.24: 1 residues within 4Å:- Chain B: E.194
No protein-ligand interaction detected (PLIP)- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Guo, L.T. et al., Polyspecific pyrrolysyl-tRNA synthetases from directed evolution. Proc.Natl.Acad.Sci.USA (2014)
- Release Date
- 2014-11-12
- Peptides
- Pyrrolysine--tRNA ligase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.14 Å
- Oligo State
- homo-dimer
- Ligands
- 6 x MG: MAGNESIUM ION(Non-covalent)
- 2 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)
- 2 x 33S: 3-iodo-L-phenylalanine(Non-covalent)
- 14 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Guo, L.T. et al., Polyspecific pyrrolysyl-tRNA synthetases from directed evolution. Proc.Natl.Acad.Sci.USA (2014)
- Release Date
- 2014-11-12
- Peptides
- Pyrrolysine--tRNA ligase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A