SMTL ID : 4yqn.1

Crystal structure of TrmD, a M1G37 tRNA Methyltransferase with SAM-competitive compounds

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

2 x 4H3: 6-{[(1R,3S,4R)-3-hydroxy-4-(hydroxymethyl)cyclopentyl]amino}pyridine-3-carboxamide(Non-covalent)

4H3.1: 18 residues within 4Å: Chain A: Y.94, L.95, S.96, P.97, G.121, Y.123, E.124, G.125, S.140, I.141, G.142, Y.144, V.145, L.146, T.147, G.148, G.149, P.152 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:P.97, A:P.152 Hydrogen bonds: A:Y.94, A:I.141, A:G.142, A:Y.144, A:L.146, A:L.146 Water bridges: A:E.124 4H3.2: 18 residues within 4Å: Chain B: Y.94, L.95, S.96, P.97, G.121, Y.123, E.124, G.125, S.140, I.141, G.142, Y.144, V.145, L.146, T.147, G.148, G.149, P.152 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:P.97, B:P.152 Hydrogen bonds: B:Y.94, B:Y.94, B:I.141, B:G.142, B:Y.144, B:L.146, B:L.146 Water bridges: B:E.124

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Elkins, P.A. et al., Crystal structure of TrmD, a M1G37 tRNA Methyltransferase with SAM-competitive compounds. To Be Published

Release Date

2016-03-16

Peptides

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

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

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

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