› 3ky7

X-ray diffraction
2.35Å resolution

2.35 Angstrom resolution crystal structure of a putative tRNA (guanine-7-)-methyltransferase (trmD) from Staphylococcus aureus subsp. aureus MRSA252

Released:
DOI: 10.2210/pdb3ky7/pdb
PDB entry 3ky7 coloured by chain, front view.
PDB entry 3ky7 coloured by chain, side view.
PDB entry 3ky7 coloured by chain, top view.
Source organism: Staphylococcus aureus subsp. aureus MRSA252
Entry authors: Halavaty AS, Minasov G, Winsor J, Dubrovska I, Shuvalova L, See R, Zoraghi R, Reiner N, Anderson WF, Center for Structural Genomics of Infectious Diseases (CSGID)

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)
Assembly name:
PDBe Complex ID:
PDB-CPX-179669 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
tRNA (guanine-N(1)-)-methyltransferase Chain: A
Molecule details ›
Chain: A
Length: 269 amino acids
Theoretical weight: 30.85 KDa
Source organism: Staphylococcus aureus subsp. aureus MRSA252
Expression system: Escherichia coli
UniProt:
  • Canonical: Q6GHJ5 (Residues: 1-245; Coverage: 100%)
Gene names: SAR1216, trmD
Sequence domains: tRNA (Guanine-1)-methyltransferase
Structure domains:

Ligands and Environments

No bound ligands
1 modified residue:
Ligand OCS 1 x OCS

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 21-ID-G
Spacegroup: P4332
Unit cell:
a: 125.176Å b: 125.176Å c: 125.176Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.211 0.209 0.255
Expression system: Escherichia coli

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