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

Crystal structure of cladosporin in complex with plasmodium like human lysyl-tRNA synthetase mutant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

hetero-2-2-mer

Ligands

2 x LYS: LYSINE(Non-covalent)

LYS.1: 13 residues within 4Å: Chain A: G.209, A.231, E.233, E.271, Y.273, N.429, A.430, Y.431, E.433, G.478, W.479, G.480 Ligands: KRS.2 6 PLIP interactions: 6 interactions with chain A, Hydrophobic interactions: A:Y.431 Hydrogen bonds: A:G.209, A:E.233, A:Y.273, A:N.429, A:E.433 LYS.3: 14 residues within 4Å: Chain B: G.209, A.231, E.233, R.255, E.271, Y.273, N.429, A.430, Y.431, E.433, G.478, W.479, G.480 Ligands: KRS.4 4 PLIP interactions: 4 interactions with chain B, Hydrophobic interactions: B:Y.431 Hydrogen bonds: B:G.209, B:N.429, B:E.433

2 x KRS: cladosporin(Non-covalent)

KRS.2: 16 residues within 4Å: Chain A: R.255, E.257, T.262, H.263, N.264, F.267, S.269, E.426, I.427, C.428, N.429, M.481, G.482, R.485, I.496 Ligands: LYS.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:N.429 Hydrogen bonds: A:E.257, A:E.257, A:N.264 Salt bridges: A:R.485 pi-Stacking: A:H.263, A:F.267 KRS.4: 16 residues within 4Å: Chain B: R.255, E.257, T.262, H.263, N.264, F.267, S.269, E.426, I.427, C.428, N.429, G.480, G.482, R.485, I.496 Ligands: LYS.3 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:H.263, B:E.426, B:N.429 Hydrogen bonds: B:E.257, B:N.264 Salt bridges: B:R.485 pi-Stacking: B:H.263, B:F.267

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fang, P. et al., Structural Basis for Specific Inhibition of tRNA Synthetase by ATP Competitive Inhibitor. Chem.Biol. (2015)

Release Date

2015-06-10

Peptides

Lysine--tRNA ligase: AB
Aminoacyl tRNA synthase complex-interacting multifunctional protein 2: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Lysine--tRNA ligase

Aminoacyl tRNA synthase complex-interacting multifunctional protein 2

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