› 4yqq

X-ray diffraction
1.78Å resolution

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

Released:
DOI: 10.2210/pdb4yqq/pdb
PDB 4yqq coloured by chain and viewed from the front.
PDB 4yqq coloured by chain and viewed from the side.
PDB 4yqq coloured by chain and viewed from the top.
Source organism: Haemophilus influenzae Rd KW20
Entry authors: Elkins PA, Bonnette WG, Stuckey JA

Function and Biology Details

Reaction catalysed: 
S-adenosyl-L-methionine + guanine(37) in tRNA = S-adenosyl-L-homocysteine + N(1)-methylguanine(37) in tRNA
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
tRNA (guanine-N(1)-)-methyltransferase Chain: A
Molecule details ›
Chain: A
Length: 254 amino acids
Theoretical weight: 28.38 KDa
Source organism: Haemophilus influenzae Rd KW20
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P43912 (Residues: 1-246; Coverage: 100%)
Gene names: HI_0202, trmD
Sequence domains: tRNA (Guanine-1)-methyltransferase
Structure domains:

Ligands and Environments

1 bound ligand:
Ligand 4H7 1 x 4H7
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 21-ID-G
Spacegroup: R32
Unit cell:
a: 94.39Å b: 94.39Å c: 178.917Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.164 0.163 0.196
Expression system: Escherichia coli BL21(DE3)

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