› 4fmw

X-ray diffraction
2Å resolution

Crystal structure of methyltransferase domain of human RNA (guanine-9-) methyltransferase domain containing protein 2

Released:
DOI: 10.2210/pdb4fmw/pdb
PDB entry 4fmw coloured by chain, front view.
PDB entry 4fmw coloured by chain, side view.
PDB entry 4fmw coloured by chain, top view.
Source organism: Homo sapiens
Entry authors: Dong A, Zeng H, Loppnau P, Tempel W, Bountra C, Weigelt J, Arrowsmith CH, Edwards AM, Wu H, Structural Genomics Consortium (SGC)

Function and Biology Details

Reaction catalysed: 
S-adenosyl-L-methionine + guanine(9) in tRNA = S-adenosyl-L-homocysteine + N(1)-methylguanine(9) in tRNA
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-186183 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
tRNA methyltransferase 10 homolog A Chains: A, B
Molecule details ›
Chains: A, B
Length: 197 amino acids
Theoretical weight: 23.25 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q8TBZ6 (Residues: 82-277; Coverage: 58%)
Gene names: RG9MTD2, TRMT10A
Sequence domains: tRNA (Guanine-1)-methyltransferase
Structure domains: Alpha/beta knot

Ligands and Environments


Cofactor: Ligand SAH 2 x SAH
3 bound ligands:
Ligand EDO 3 x EDO
Ligand UNX 20 x UNX
Ligand K 1 x K
1 modified residue:
Ligand MSE 6 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: CLSI BEAMLINE 08B1-1
Spacegroup: P1
Unit cell:
a: 37.097Å b: 43.309Å c: 60.347Å
α: 100.43° β: 90.03° γ: 92.88°
R-values:
R R work R free
0.219 0.218 0.243
Expression system: Escherichia coli BL21(DE3)

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