SMTL ID : 5wyq.1

Crystal Structure and catalytic mechanism of the essential m1G37 tRNA methyltransferase TrmD from Pseudomonas aeruginosa

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.16 Å

Oligo State

homo-dimer

Ligands

2 x SAM: S-ADENOSYLMETHIONINE(Non-covalent)

SAM.1: 24 residues within 4Å: Chain A: Y.89, L.90, S.91, P.92, Q.93, G.116, Y.118, E.119, G.120, W.134, S.135, I.136, G.137, Y.139, V.140, L.141, S.142, G.143, G.144, P.147 Chain B: D.172, S.173, D.180, H.183 10 PLIP interactions: 6 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:Y.89, A:Q.93, A:G.116, A:I.136, A:Y.139, A:L.141, B:S.173, B:D.180, B:D.180 Salt bridges: B:H.183 SAM.2: 19 residues within 4Å: Chain A: D.180, H.183 Chain B: Y.89, L.90, S.91, P.92, Q.93, G.116, Y.118, E.119, W.134, S.135, I.136, G.137, Y.139, L.141, G.143, G.144, P.147 10 PLIP interactions: 7 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:Y.89, B:Q.93, B:Q.93, B:G.116, B:I.136, B:Y.139, B:L.141, A:D.180, A:D.180 Salt bridges: A:H.183

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jaroensuk, J. et al., Crystal structure and catalytic mechanism of the essential m1G37 tRNA methyltransferase TrmD fromPseudomonas aeruginosa. Rna (2019)

Release Date

2017-12-20

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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