› 2qmm

X-ray diffraction
1.85Å resolution

Crystal structure of APC86534.1 (C-terminal domain of NCBI AAB90184.1; Pfam BIG 123.1)

Released:
DOI: 10.2210/pdb2qmm/pdb
PDB entry 2qmm coloured by chain, front view.
PDB entry 2qmm coloured by chain, side view.
PDB entry 2qmm coloured by chain, top view.
Source organism: Archaeoglobus fulgidus DSM 4304
Entry authors: Joachimiak A, Duke N, Zhou M, Gu M, Midwest Center for Structural Genomics (MCSG)

Function and Biology Details

Reaction catalysed: 
S-adenosyl-L-methionine + pseudouridine(54) in tRNA = S-adenosyl-L-homocysteine + N(1)-methylpseudouridine(54) in tRNA
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-128104 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
tRNA (pseudouridine(54)-N(1))-methyltransferase Chains: A, B
Molecule details ›
Chains: A, B
Length: 197 amino acids
Theoretical weight: 21.91 KDa
Source organism: Archaeoglobus fulgidus DSM 4304
Expression system: Escherichia coli
UniProt:
  • Canonical: O29206 (Residues: 95-288; Coverage: 67%)
Gene names: AF_1056, trmY
Sequence domains: Putative SAM-dependent RNA methyltransferase
Structure domains: Alpha/beta knot

Ligands and Environments

1 bound ligand:
Ligand SAM 2 x SAM
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: P212121
Unit cell:
a: 70.309Å b: 79.384Å c: 105.444Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.227 0.226 0.243
Expression system: Escherichia coli

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