› 3fyd

X-ray diffraction
1.75Å resolution

Crystal Structure of Dim1 from the thermophilic archeon, Methanocaldococcus jannaschi

Released:
DOI: 10.2210/pdb3fyd/pdb
PDB entry 3fyd coloured by chain, front view.
PDB entry 3fyd coloured by chain, side view.
PDB entry 3fyd coloured by chain, top view.
Source organism: Methanocaldococcus jannaschii
Primary publication:
Structural and functional divergence within the Dim1/KsgA family of rRNA methyltransferases.
Pulicherla N, Pogorzala LA, Xu Z, O Farrell HC, Musayev FN, Scarsdale JN, Sia EA, Culver GM, Rife JP
J Mol Biol 391 884-93 (2009)
PMID: 19520088

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-176617 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Probable ribosomal RNA small subunit methyltransferase A Chain: A
Molecule details ›
Chain: A
Length: 263 amino acids
Theoretical weight: 30.32 KDa
Source organism: Methanocaldococcus jannaschii
Expression system: Escherichia coli
UniProt:
  • Canonical: Q58435 (Residues: 10-272; Coverage: 96%)
Gene names: MJ1029, ksgA, rsmA
Sequence domains: Ribosomal RNA adenine dimethylase
Structure domains:

Ligands and Environments

1 bound ligand:
Ligand SO4 5 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-007
Spacegroup: P21
Unit cell:
a: 40.236Å b: 65.906Å c: 61.932Å
α: 90° β: 108.1° γ: 90°
R-values:
R R work R free
0.181 0.176 0.226
Expression system: Escherichia coli

Quick links

Citations

1 review citation

Functional implications of ribosomal RNA methylation in response to environmental stress.
Baldridge et al. (2014)
15 other articles

1 mention without citation

Structural and functional divergence within the Dim1/KsgA family of rRNA methyltransferases.
Pulicherla et al. (2009)