SMTL ID : 8y2o.1

The Cryo-EM structure of human tRNA methyltransferase FTSJ1-THADA with substrate tRNA and S-adenosyl homocysteine (SAH)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-mer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 2 residues within 4Å: Chain A: C.311, C.327 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:C.311, A:C.327

1 x SAH: S-ADENOSYL-L-HOMOCYSTEINE(Non-covalent)

SAH.2: 18 residues within 4Å: Chain B: A.41, S.43, C.67, A.68, A.69, P.70, S.72, W.73, D.93, L.94, G.108, D.109, I.110, D.134, G.135, A.136, L.153 Chain C: C.32 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:S.43, B:A.69, B:S.72, B:S.72, B:W.73, B:L.94, B:D.109, B:D.109, B:I.110, B:D.134, B:D.134, B:A.136

7 x MG: MAGNESIUM ION(Non-functional Binders)(Non-covalent)

MG.3: 3 residues within 4Å: Chain C: C.25, G.26, U.27 No protein-ligand interaction detected (PLIP) MG.4: 3 residues within 4Å: Chain A: D.433 Chain C: A.44, G.45 No protein-ligand interaction detected (PLIP) MG.5: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.6: 3 residues within 4Å: Chain C: U.55, C.56, G.57 No protein-ligand interaction detected (PLIP) MG.7: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) MG.8: 1 residues within 4Å: Chain C: G.15 No protein-ligand interaction detected (PLIP) MG.9: 4 residues within 4Å: Chain A: I.995, W.1082, G.1135 Chain C: A.35 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ishiguro, K. et al., Structural insights into tRNA recognition of the human FTSJ1-THADA complex. Commun Biol (2025)

Release Date

2025-06-18

Peptides

tRNA (32-2'-O)-methyltransferase regulator THADA: A
tRNA (cytidine(32)/guanosine(34)-2'-O)-methyltransferase: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

tRNA (32-2'-O)-methyltransferase regulator THADA

tRNA (cytidine(32)/guanosine(34)-2'-O)-methyltransferase