- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.20 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x HIS: HISTIDINE(Non-covalent)
- 2 x 4JN: 6-bromopyridin-3-amine(Non-covalent)
4JN.2: 8 residues within 4Å:- Chain A: P.103, C.132, W.133, R.134, R.143, R.144, E.145, H.146
4 PLIP interactions:4 interactions with chain A- Hydrophobic interactions: A:R.134, A:R.134
- Hydrogen bonds: A:P.103
- pi-Stacking: A:H.146
4JN.13: 8 residues within 4Å:- Chain B: I.84, P.103, C.132, W.133, R.134, R.143, E.145, H.146
4 PLIP interactions:4 interactions with chain B- Hydrophobic interactions: B:R.134, B:R.134
- Hydrogen bonds: B:P.103
- pi-Stacking: B:H.146
- 5 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)
DMS.3: 4 residues within 4Å:- Chain A: W.171, R.174, S.175, Y.280
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:R.174
- pi-Cation interactions: A:W.171, A:W.171
DMS.4: 6 residues within 4Å:- Chain A: E.74, L.75, I.77, R.78, T.326, Y.327
No protein-ligand interaction detected (PLIP)DMS.5: 3 residues within 4Å:- Chain A: V.450, P.451, R.454
No protein-ligand interaction detected (PLIP)DMS.14: 4 residues within 4Å:- Chain B: W.171, R.174, S.175, Y.280
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:R.174
- pi-Cation interactions: B:W.171, B:W.171
DMS.15: 6 residues within 4Å:- Chain A: V.27
- Chain B: E.74, L.75, I.77, R.78, Y.327
No protein-ligand interaction detected (PLIP)- 5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.6: 5 residues within 4Å:- Chain A: T.93, G.95
- Chain B: Y.135, T.139, R.144
6 PLIP interactions:2 interactions with chain A, 4 interactions with chain B- Hydrogen bonds: A:T.93, A:G.95, B:T.139, B:R.144, B:R.144
- Water bridges: B:Y.135
EDO.7: 8 residues within 4Å:- Chain A: I.367, V.400, F.404, A.415, L.417, Q.429, V.430, K.431
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:L.417, A:Q.429
EDO.8: 5 residues within 4Å:- Chain A: F.207, A.295, Y.297, T.298, N.322
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:N.322
- Water bridges: A:N.322
EDO.9: 3 residues within 4Å:- Chain A: Q.228, V.231, L.232
No protein-ligand interaction detected (PLIP)EDO.16: 6 residues within 4Å:- Chain A: Q.33, Y.135, R.144
- Chain B: T.93, G.95, H.97
6 PLIP interactions:2 interactions with chain A, 4 interactions with chain B- Hydrogen bonds: A:R.144, A:R.144, B:T.93, B:T.93, B:G.95, B:H.97
- 5 x SO4: SULFATE ION(Non-functional Binders)
SO4.10: 5 residues within 4Å:- Chain A: H.146, G.341, D.342, C.343, V.344
8 PLIP interactions:8 interactions with chain A- Hydrogen bonds: A:D.342, A:D.342, A:C.343, A:V.344
- Water bridges: A:G.341, A:G.341, A:I.345
- Salt bridges: A:H.146
SO4.11: 4 residues within 4Å:- Chain A: R.174, S.179, S.180, W.283
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:S.180
- Salt bridges: A:R.174
SO4.17: 5 residues within 4Å:- Chain B: H.146, G.341, D.342, C.343, V.344
6 PLIP interactions:6 interactions with chain B- Hydrogen bonds: B:D.342, B:C.343, B:V.344
- Water bridges: B:G.341, B:I.345
- Salt bridges: B:H.146
SO4.18: 4 residues within 4Å:- Chain B: R.174, S.179, S.180, W.283
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:S.180
- Salt bridges: B:R.174
SO4.19: 4 residues within 4Å:- Chain A: R.47
- Chain B: R.47, F.50, H.54
5 PLIP interactions:2 interactions with chain B, 3 interactions with chain A- Salt bridges: B:R.47, B:H.54, A:R.47
- Water bridges: A:R.46, A:R.47
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Koh, C.Y. et al., A binding hotspot in Trypanosoma cruzi histidyl-tRNA synthetase revealed by fragment-based crystallographic cocktail screens. Acta Crystallogr. D Biol. Crystallogr. (2015)
- Release Date
- 2015-08-12
- Peptides
- Histidyl-tRNA synthetase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
BB
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.20 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x HIS: HISTIDINE(Non-covalent)
- 2 x 4JN: 6-bromopyridin-3-amine(Non-covalent)
- 5 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)
- 5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 5 x SO4: SULFATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Koh, C.Y. et al., A binding hotspot in Trypanosoma cruzi histidyl-tRNA synthetase revealed by fragment-based crystallographic cocktail screens. Acta Crystallogr. D Biol. Crystallogr. (2015)
- Release Date
- 2015-08-12
- Peptides
- Histidyl-tRNA synthetase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
BB
A