SMTL ID : 7edc.1

Crystal structure of mutant tRNA [Gm18] methyltransferase TrmH (E107G) in complex with S-adenosyl-L-methionine from Escherichia coli

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

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

SAM.1: 18 residues within 4Å: Chain A: K.49, N.52, T.116, M.138, G.139, Q.140, E.141, K.142, G.144, I.158, I.159, M.161, Q.166, S.167, L.168, N.169, V.170, A.173 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:E.141 Hydrogen bonds: A:N.52, A:T.116, A:G.139, A:Q.140, A:I.159, A:I.159, A:L.168, A:N.169, A:V.170 Salt bridges: A:K.49 SAM.3: 18 residues within 4Å: Chain B: K.49, N.52, T.116, M.138, G.139, Q.140, E.141, K.142, G.144, I.158, I.159, M.161, Q.166, S.167, L.168, N.169, V.170, A.173 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:E.141 Hydrogen bonds: B:N.52, B:T.116, B:G.139, B:Q.140, B:E.141, B:I.159, B:I.159, B:L.168, B:N.169, B:V.170 Salt bridges: B:K.49

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 8 residues within 4Å: Chain A: Q.46, V.47, H.48, K.49, N.52, Q.140, E.141, V.170 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:H.48, A:K.49, A:N.52, A:E.141 Salt bridges: A:H.48, A:K.49 PO4.4: 8 residues within 4Å: Chain B: Q.46, V.47, H.48, K.49, N.52, Q.140, E.141, V.170 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:H.48, B:K.49, B:N.52, B:E.141 Salt bridges: B:H.48, B:K.49

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kono, Y. et al., Unique substrate specificity of type II tRNA Gm18 methyltransferase from Escherichia coli. To Be Published

Release Date

2022-03-23

Peptides

tRNA (guanosine(18)-2'-O)-methyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

tRNA (guanosine(18)-2'-O)-methyltransferase