SMTL ID : 4up7.1

Crystal structure of Entamoeba histolytica lysyl-tRNA synthetase in complex with lysyl-adenylate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.79 Å

Oligo State

homo-dimer

Ligands

2 x LAD: ADENOSINE-5'-[LYSYL-PHOSPHATE](Non-covalent)

LAD.1: 25 residues within 4Å: Chain A: G.213, A.214, A.235, E.237, R.259, E.261, T.266, H.267, N.268, F.271, T.273, E.275, Y.277, E.488, I.489, A.490, N.491, Y.493, E.495, G.540, W.541, G.542, G.544, R.547, I.558 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:E.237, A:R.259, A:E.261, A:N.268, A:E.275, A:E.275, A:Y.277, A:G.544, A:R.547, A:R.547 Salt bridges: A:R.259, A:R.259 pi-Stacking: A:F.271, A:F.271 pi-Cation interactions: A:R.547, A:R.547 LAD.2: 25 residues within 4Å: Chain B: G.213, A.214, A.235, E.237, R.259, E.261, T.266, H.267, N.268, F.271, T.273, E.275, Y.277, E.488, I.489, A.490, N.491, Y.493, E.495, G.540, W.541, G.542, G.544, R.547, I.558 16 PLIP interactions: 16 interactions with chain B Hydrogen bonds: B:E.237, B:R.259, B:E.261, B:N.268, B:E.275, B:E.275, B:Y.277, B:G.544, B:R.547, B:R.547 Salt bridges: B:R.259, B:R.259 pi-Stacking: B:F.271, B:F.271 pi-Cation interactions: B:R.547, B:R.547

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bonnefond, L. et al., Crystal Structures of Entamoeba Histolytica Lysyl-tRNA Synthetase Reveal Conformational Changes Upon Lysine Binding and a Specific Helix Bundle Domain. FEBS Lett. (2014)

Release Date

2014-10-29

Peptides

LYSINE--TRNA LIGASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

LYSINE--TRNA LIGASE