› 1prz

X-ray diffraction
1.8Å resolution

Crystal structure of pseudouridine synthase RluD catalytic module

Released:
DOI: 10.2210/pdb1prz/pdb
PDB entry 1prz coloured by chain, front view.
PDB entry 1prz coloured by chain, side view.
PDB entry 1prz coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Crystal structure of the RluD pseudouridine synthase catalytic module, an enzyme that modifies 23S rRNA and is essential for normal cell growth of Escherichia coli.
Sivaraman J, Iannuzzi P, Cygler M, Matte A
J Mol Biol 335 87-101 (2004)
PMID: 14659742

Function and Biology Details

Reaction catalysed: 
23S rRNA uridine(1911)/uridine(1915)/uridine(1917) = 23S rRNA pseudouridine(1911)/pseudouridine(1915)/pseudouridine(1917)
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-152625 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ribosomal large subunit pseudouridine synthase D Chain: A
Molecule details ›
Chain: A
Length: 252 amino acids
Theoretical weight: 29.23 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P33643 (Residues: 75-326; Coverage: 77%)
Gene names: JW2576, b2594, rluD, sfhB, yfiI
Sequence domains: RNA pseudouridylate synthase
Structure domains:

Ligands and Environments

No bound ligands
1 modified residue:
Ligand MSE 10 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-007
Spacegroup: P212121
Unit cell:
a: 52.261Å b: 76.362Å c: 85.717Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.218 0.218 0.243
Expression system: Escherichia coli

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Citations

6 review citations

Pseudouridine synthases.
Hamma et al. (2006)
5 more