SMTL ID : 6od8.1

Crystal structure of a putative aspartyl-tRNA synthetase from Leishmania major Friedlin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-dimer

Ligands

17 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 2 residues within 4Å: Chain A: E.462, R.498 Ligand excluded by PLIP EDO.2: 8 residues within 4Å: Chain A: S.274, P.275, V.296, R.298, G.313, D.315, G.527, I.528 Ligand excluded by PLIP EDO.3: 7 residues within 4Å: Chain A: Y.325, Q.389, R.391, R.401, I.402, N.403, D.449 Ligand excluded by PLIP EDO.4: 6 residues within 4Å: Chain A: M.461, E.462, V.467, I.489, L.494 Chain B: Q.64 Ligand excluded by PLIP EDO.5: 6 residues within 4Å: Chain A: I.249, S.274, P.275, Q.276, L.277, Y.278 Ligand excluded by PLIP EDO.6: 6 residues within 4Å: Chain A: D.329, E.332, S.333, H.393, N.394, S.397 Ligand excluded by PLIP EDO.7: 3 residues within 4Å: Chain A: E.340, R.341, T.344 Ligand excluded by PLIP EDO.8: 4 residues within 4Å: Chain A: T.413, L.415, D.416, K.418 Ligand excluded by PLIP EDO.9: 6 residues within 4Å: Chain A: G.434, K.435, K.438, D.444, R.478, G.479 Ligand excluded by PLIP EDO.11: 3 residues within 4Å: Chain B: E.462, A.497, R.498 Ligand excluded by PLIP EDO.12: 7 residues within 4Å: Chain B: S.274, V.296, R.298, G.313, D.315, G.527, I.528 Ligand excluded by PLIP EDO.13: 7 residues within 4Å: Chain B: Y.325, Q.389, R.391, R.401, I.402, N.403, D.449 Ligand excluded by PLIP EDO.14: 6 residues within 4Å: Chain A: Q.64 Chain B: M.461, E.462, V.467, I.489, L.494 Ligand excluded by PLIP EDO.15: 6 residues within 4Å: Chain B: D.329, E.332, S.333, H.393, N.394, S.397 Ligand excluded by PLIP EDO.16: 3 residues within 4Å: Chain B: E.340, R.341, T.344 Ligand excluded by PLIP EDO.17: 5 residues within 4Å: Chain B: T.413, V.414, L.415, D.416, K.418 Ligand excluded by PLIP EDO.18: 6 residues within 4Å: Chain B: G.434, K.435, K.438, D.444, R.478, G.479 Ligand excluded by PLIP

2 x FMT: FORMIC ACID(Non-functional Binders)

FMT.10: 5 residues within 4Å: Chain A: Y.278, I.509, E.511, Y.512 Chain B: P.558 6 PLIP interactions: 1 interactions with chain B, 5 interactions with chain A Hydrogen bonds: B:P.558, A:Y.278, A:I.509, A:E.511, A:E.511, A:Y.512 FMT.19: 5 residues within 4Å: Chain A: P.558 Chain B: Y.278, I.509, E.511, Y.512 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:I.509, B:E.511, B:Y.512 Water bridges: B:Y.278

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Abendroth, J. et al., Crystal structure of a putative aspartyl-tRNA synthetase from Leishmania major Friedlin. to be published

Release Date

2019-04-17

Peptides

Putative aspartyl-tRNA synthetase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Putative aspartyl-tRNA synthetase