PROSITE documentation PDOC50890
PUA domain profile


The PUA domain, which has been named after PseudoUridine synthase and Archaeosine-specific transglycosylase, is a small, compact domain that consists of 78-83 amino acid residues. The PUA domain is widely conserved in eukaryotic and archaeal RNA modification enzymes and is found in:

  • Archaeal and eukaryotic pseudouridine synthases.
  • Archaeosine tRNA-guanine transglycosylases.
  • A family of predicted ATPases that may be involved in RNA modification.
  • A family of predicted archaeal and bacterial rRNA methylases.
  • A conserved family of putative novel eukaryotic translation factors.
  • Glutamate 5-kinases (EC

The PUA domain can be found alone or in association with other domains, such as the glutamate kinase domain (see <PDOC00701>), the pseudouridine synthase catalytic domain, the phosphoadenosine phosphosulfate (PAPS) reductase domain, the methylase domain, the TGT domain, or the SUI1 domain (see <PDOC00862 >). The PUA domain is supposed to bind to RNA molecules with complex folded structures [1].

The PUA domain contains highly conserved motifs that center around stretches of hydrophobic residues. The domain also contains two highly conserved positions occupied by small amino acids (primarily glycines) [1]. The resolution of the crystal structure of archaeosine tRNA-guanine transglycosylase from Pyrococcus horikoshii has shown that the PUA domain consists of two α-helices and six β-strands, and folds into a β-sandwich structure similar to the oligonucleotide-binding (OB)-fold (see <PDB:1IQ8>) [2].

The profile we developed covers the entire PUA domain.

Last update:

November 2002 / First entry.


Technical section

PROSITE method (with tools and information) covered by this documentation:

PUA, PS50890; PUA domain profile  (MATRIX)


1AuthorsAravind L. Koonin E.V.
TitleNovel predicted RNA-binding domains associated with the translation machinery.
SourceJ. Mol. Evol. 48:291-302(1999).
PubMed ID10093218

2AuthorsIshitani R. Nureki O. Fukai S. Kijimoto T. Nameki N. Watanabe M. Kondo H. Sekine M. Okada N. Nishimura S. Yokoyama S.
TitleCrystal structure of archaeosine tRNA-guanine transglycosylase.
SourceJ. Mol. Biol. 318:665-677(2002).
PubMed ID12054814

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