SMTL ID : 1wkb.1

Crystal Structure of Leucyl-tRNA Synthetase from the Archaeon Pyrococcus horikoshii Reveals a Novel Editing Domain Orientation

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

monomer

Ligands

8 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 6 residues within 4Å: Chain A: G.84, S.85, P.86, D.195, H.196, R.510 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:S.85, A:D.195 Water bridges: A:D.195, A:R.510, A:I.512, A:S.528, A:S.528 Salt bridges: A:R.510 SO4.2: 3 residues within 4Å: Chain A: S.652, K.653, S.654 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:K.653, A:S.654 Water bridges: A:K.100, A:K.100, A:M.651 Salt bridges: A:K.100, A:K.653 SO4.3: 5 residues within 4Å: Chain A: R.93, E.200, G.201, E.202, D.203 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.201, A:E.202 Salt bridges: A:R.93 SO4.4: 2 residues within 4Å: Chain A: R.492, K.611 6 PLIP interactions: 6 interactions with chain A Water bridges: A:R.492, A:R.492, A:R.492, A:Q.495 Salt bridges: A:R.492, A:K.611 SO4.5: 4 residues within 4Å: Chain A: H.181, K.506, A.507, R.510 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:A.507 Water bridges: A:K.506, A:A.507, A:A.507, A:R.510, A:R.510, A:R.510, A:R.510 Salt bridges: A:K.506, A:R.510 SO4.6: 4 residues within 4Å: Chain A: R.182, R.184, P.205, I.206 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:I.206 Water bridges: A:R.182, A:R.184, A:R.184, A:R.184, A:D.195 Salt bridges: A:R.182, A:R.184 SO4.7: 4 residues within 4Å: Chain A: T.229, L.230, R.231, Y.401 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.229, A:L.230, A:R.231 SO4.8: 4 residues within 4Å: Chain A: W.185, G.190, F.275, K.459 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.185 Salt bridges: A:K.459

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fukunaga, R. et al., Crystal Structure of Leucyl-tRNA Synthetase from the Archaeon Pyrococcus horikoshii Reveals a Novel Editing Domain Orientation. J.Mol.Biol. (2005)

Release Date

2005-02-08

Peptides

Leucyl-tRNA synthetase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Leucyl-tRNA synthetase