SMTL ID : 1wyd.1

Crystal Structure of Aspartyl-tRNA synthetase from Sulfolobus tokodaii

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 4 residues within 4Å: Chain A: A.165, T.166, E.167, Q.186 Ligand excluded by PLIP CL.4: 4 residues within 4Å: Chain B: A.165, T.166, E.167, Q.186 Ligand excluded by PLIP

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

SO4.2: 5 residues within 4Å: Chain A: P.217, F.218, S.413, V.414, K.415 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:F.218, A:V.414, A:K.415 Salt bridges: A:K.415 SO4.5: 6 residues within 4Å: Chain B: T.216, P.217, F.218, S.413, V.414, K.415 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:F.218, B:V.414, B:K.415 Water bridges: B:H.219

2 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.3: 7 residues within 4Å: Chain A: F.218, H.219, L.220, F.223, A.402, R.403, V.414 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:L.220 Water bridges: A:E.222, A:A.402, A:A.402, A:R.403 Salt bridges: A:R.403 EPE.6: 6 residues within 4Å: Chain B: F.218, H.219, L.220, F.223, R.403, V.414 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:L.220 Water bridges: B:R.210, B:A.402, B:A.402, B:R.403 Salt bridges: B:R.403

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sato, Y. et al., Structure of the nondiscriminating aspartyl-tRNA synthetase from the crenarchaeon Sulfolobus tokodaii strain 7 reveals the recognition mechanism for two different tRNA anticodons. ACTA CRYSTALLOGR.,SECT.D (2007)

Release Date

2006-07-04

Peptides

hypothetical aspartyl-tRNA synthetase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

hypothetical aspartyl-tRNA synthetase