SMTL ID : 4p3n.1 (1 other biounit)

Structural Basis for Full-Spectrum Inhibition of Threonyl-tRNA Synthetase by Borrelidin 1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-dimer

Ligands

2 x 2CR: (1R,2R)-2-[(2S,4E,6E,8R,9S,11R,13S,15S,16S)-7-cyano-8,16-dihydroxy-9,11,13,15-tetramethyl-18-oxooxacyclooctadeca-4,6-dien-2-yl]cyclopentanecarboxylic acid(Non-covalent)

2CR.1: 12 residues within 4Å: Chain A: G.79, H.80, M.103, C.105, R.134, Q.152, F.231, Y.232, T.252, D.256, L.259, H.282 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.231, A:F.231, A:Y.232, A:Y.232, A:T.252 Hydrogen bonds: A:Q.152, A:Y.232, A:D.256 Water bridges: A:Q.152 Salt bridges: A:R.134 2CR.3: 11 residues within 4Å: Chain B: G.79, H.80, M.103, C.105, R.134, Q.152, Y.232, T.252, D.256, L.259, H.282 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:Y.232, B:Y.232, B:T.252, B:H.282 Hydrogen bonds: B:Q.152, B:Y.232, B:D.256 Salt bridges: B:R.134

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: C.105, D.154, H.156, H.282 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.105, A:H.156, A:H.282 ZN.4: 4 residues within 4Å: Chain B: C.105, D.154, H.156, H.282 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:C.105, B:H.156, B:H.282

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fang, P. et al., Structural basis for full-spectrum inhibition of translational functions on a tRNA synthetase. Nat Commun (2015)

Release Date

2015-03-11

Peptides

Threonine--tRNA ligase, cytoplasmic: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Threonine--tRNA ligase, cytoplasmic

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