SMTL ID : 6qoo.1

Crystal structure of TrmD, a tRNA-(N1G37) methyltransferase, from Mycobacterium abscessus in complex with Fragment 18 (Isoxazole-5-carbothioamide)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.94 Å

Oligo State

homo-dimer

Ligands

2 x JAB: 1,2-oxazole-5-carbothioamide(Non-covalent)

JAB.1: 12 residues within 4Å: Chain A: T.86, P.87, Y.113, V.133, S.134, I.135, G.136, Y.138, V.139, L.140, G.142, A.146 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.138, A:L.140 JAB.2: 12 residues within 4Å: Chain B: T.86, P.87, Y.113, V.133, S.134, I.135, G.136, Y.138, V.139, L.140, G.142, A.146 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.138, B:L.140

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 2 residues within 4Å: Chain B: R.129, R.131 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.131

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Thomas, S.E. et al., Fragment-based discovery of a new class of inhibitors targeting mycobacterial tRNA modification. Nucleic Acids Res. (2020)

Release Date

2020-02-26

Peptides

tRNA (guanine-N(1)-)-methyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

tRNA (guanine-N(1)-)-methyltransferase

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