SMTL ID : 4kr3.1

Glycyl-tRNA synthetase mutant E71G in complex with tRNA-Gly

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.24 Å

Oligo State

homo-dimer

Ligands

2 x GLY: GLYCINE(Non-covalent)

GLY.1: 7 residues within 4Å: Chain A: E.189, R.221, E.240, R.354, E.466, S.468 Ligands: ANP.2 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.221, A:R.354, A:R.354, A:E.466, A:S.468 GLY.3: 7 residues within 4Å: Chain C: E.189, R.221, E.240, R.354, E.466, S.468 Ligands: ANP.4 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:R.221, C:R.354, C:R.354, C:E.466, C:S.468

2 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.2: 17 residues within 4Å: Chain A: R.221, E.223, L.230, I.231, R.232, V.233, F.236, H.322, D.336, E.347, I.348, V.349, G.350, S.468, G.470, R.473 Ligands: GLY.1 12 PLIP interactions: 11 interactions with chain A, 1 Ligand-Ligand interactions Hydrogen bonds: A:E.223, A:V.233, A:E.347, A:E.347, A:E.347, A:G.350, G.1 Salt bridges: A:R.221 pi-Stacking: A:F.236, A:F.236 pi-Cation interactions: A:R.473, A:R.473 ANP.4: 17 residues within 4Å: Chain C: R.221, E.223, L.230, I.231, R.232, V.233, F.236, H.322, D.336, E.347, I.348, V.349, G.350, S.468, G.470, R.473 Ligands: GLY.3 12 PLIP interactions: 11 interactions with chain C, 1 Ligand-Ligand interactions Hydrogen bonds: C:E.223, C:V.233, C:E.347, C:E.347, C:E.347, C:G.350, G.3 Salt bridges: C:R.221 pi-Stacking: C:F.236, C:F.236 pi-Cation interactions: C:R.473, C:R.473

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Qin, X. et al., Cocrystal Structures of Glycyl-tRNA Synthetase in Complex with tRNA Suggest Multiple Conformational States in Glycylation. J.Biol.Chem. (2014)

Release Date

2014-05-21

Peptides

Glycine--tRNA ligase: AC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

Glycine--tRNA ligase