SMTL ID : 4pg3.1 (1 other biounit)

Crystal structure of KRS complexed with inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-dimer

Ligands

2 x LYS: LYSINE(Non-covalent)

LYS.1: 13 residues within 4Å: Chain A: G.208, A.230, E.232, R.254, E.270, Y.272, N.427, Y.429, E.431, G.476, L.477, G.478 Ligands: KRS.2 9 PLIP interactions: 9 interactions with chain A, Hydrophobic interactions: A:Y.429 Hydrogen bonds: A:G.208, A:E.232, A:Y.272, A:N.427, A:E.431 Water bridges: A:R.254, A:R.254 Salt bridges: A:R.254 LYS.3: 13 residues within 4Å: Chain B: G.208, A.230, E.232, R.254, E.270, Y.272, N.427, Y.429, E.431, G.476, L.477, G.478 Ligands: KRS.4 7 PLIP interactions: 6 interactions with chain B, 1 Ligand-Ligand interactions Hydrophobic interactions: B:Y.429 Hydrogen bonds: B:G.208, B:E.270, B:N.427, B:E.431, K.3 Salt bridges: B:R.254

2 x KRS: cladosporin(Non-covalent)

KRS.2: 17 residues within 4Å: Chain A: R.254, E.256, T.261, H.262, N.263, F.266, S.268, E.424, V.425, L.426, N.427, G.478, L.479, G.480, R.483, I.494 Ligands: LYS.1 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:H.262, A:F.266, A:E.424, A:N.427 Hydrogen bonds: A:E.256, A:T.261, A:N.263 Salt bridges: A:R.483 pi-Stacking: A:H.262, A:F.266 KRS.4: 17 residues within 4Å: Chain B: R.254, E.256, T.261, H.262, N.263, F.266, S.268, E.424, V.425, L.426, N.427, G.478, L.479, G.480, R.483, I.494 Ligands: LYS.3 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:H.262, B:F.266, B:E.424, B:N.427 Hydrogen bonds: B:T.261, B:N.263 Water bridges: B:D.482 Salt bridges: B:R.483 pi-Stacking: B:H.262, B:F.266

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Khan, S. et al., Structural basis of malaria parasite lysyl-tRNA synthetase inhibition by cladosporin. J. Struct. Funct. Genomics (2014)

Release Date

2014-07-16

Peptides

Lysine--tRNA ligase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Lysine--tRNA ligase

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