SMTL ID : 6ilh.1

Crystal Structure of human lysyl-tRNA synthetase L350H mutant

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-dimer

Ligands

2 x KAA: 5'-O-[(L-LYSYLAMINO)SULFONYL]ADENOSINE(Non-covalent)

KAA.1: 26 residues within 4Å: Chain A: G.209, A.210, A.231, E.233, R.255, E.257, T.262, H.263, N.264, F.267, T.269, E.271, Y.273, E.426, I.427, C.428, N.429, A.430, Y.431, E.433, G.478, W.479, G.480, G.482, R.485, I.496 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:Y.431 Hydrogen bonds: A:E.233, A:R.255, A:R.255, A:E.257, A:E.257, A:N.264, A:E.271, A:E.426, A:N.429, A:E.433, A:G.482, A:R.485 Salt bridges: A:R.255 pi-Stacking: A:F.267, A:F.267 pi-Cation interactions: A:R.485 KAA.2: 26 residues within 4Å: Chain B: G.209, A.210, A.231, E.233, R.255, E.257, T.262, H.263, N.264, F.267, T.269, E.271, Y.273, E.426, I.427, C.428, N.429, A.430, Y.431, E.433, G.478, W.479, G.480, G.482, R.485, I.496 19 PLIP interactions: 19 interactions with chain B Hydrophobic interactions: B:Y.431 Hydrogen bonds: B:E.233, B:R.255, B:R.255, B:E.257, B:E.257, B:N.264, B:E.271, B:Y.273, B:E.426, B:N.429, B:E.433, B:G.482, B:R.485 Water bridges: B:Y.431 Salt bridges: B:R.255 pi-Stacking: B:F.267, B:F.267 pi-Cation interactions: B:R.485

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hei, Z. et al., Retractile lysyl-tRNA synthetase-AIMP2 assembly in the human multi-aminoacyl-tRNA synthetase complex. J. Biol. Chem. (2019)

Release Date

2019-02-27

Peptides

Lysine-tRNA ligase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Lysine-tRNA ligase