› 3kw2

X-ray diffraction
2Å resolution

Crystal structure of probable rRNA-methyltransferase from Porphyromonas gingivalis

Released:
DOI: 10.2210/pdb3kw2/pdb
PDB entry 3kw2 coloured by chain, front view.
PDB entry 3kw2 coloured by chain, side view.
PDB entry 3kw2 coloured by chain, top view.
Source organism: Porphyromonas gingivalis ATCC 33277
Entry authors: Ramagopal UA, Toro R, Burley SK, Almo SC, New York SGX Research Center for Structural Genomics (NYSGXRC)

Function and Biology Details

Reaction catalysed: 
S-adenosyl-L-methionine + uracil(1498) in 16S rRNA = S-adenosyl-L-homocysteine + N(3)-methyluracil(1498) in 16S rRNA
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-109697 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ribosomal RNA small subunit methyltransferase E Chains: A, B
Molecule details ›
Chains: A, B
Length: 257 amino acids
Theoretical weight: 29.2 KDa
Source organism: Porphyromonas gingivalis ATCC 33277
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: B2RH75 (Residues: 2-248; Coverage: 100%)
Gene name: PGN_0201
Sequence domains:
Structure domains:

Ligands and Environments

1 bound ligand:
Ligand ADN 2 x ADN
1 modified residue:
Ligand MSE 10 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X29A
Spacegroup: P212121
Unit cell:
a: 40.565Å b: 100.86Å c: 119.634Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.213 0.21 0.266
Expression system: Escherichia coli BL21(DE3)

Quick links