DB code: D00263

CATH domain 3.30.70.660 : Alpha-Beta Plaits
3.30.70.580 : Alpha-Beta Plaits Catalytic domain
E.C. 5.4.99.12
CSA 1dj0
M-CSA 1dj0
MACiE

CATH domain Related DB codes (homologues)

Uniprot Enzyme Name
UniprotKB Protein name Synonyms RefSeq Pfam
P07649 tRNA pseudouridine synthase A
EC 5.4.99.12
tRNA pseudouridine(38-40) synthase
tRNA pseudouridylate synthase I
PSU-I
tRNA-uridine isomerase I
NP_416821.1 (Protein)
NC_000913.2 (DNA/RNA sequence)
YP_490560.1 (Protein)
NC_007779.1 (DNA/RNA sequence)
PF01416 (PseudoU_synth_1)
[Graphical View]

KEGG enzyme name
tRNA-pseudouridine synthase I
tRNA-uridine isomerase
tRNA pseudouridylate synthase I
transfer ribonucleate pseudouridine synthetase
pseudouridine synthase
transfer RNA pseudouridine synthetase

UniprotKB: Accession Number Entry name Activity Subunit Subcellular location Cofactor
P07649 TRUA_ECOLI tRNA uridine = tRNA pseudouridine. Homodimer.

KEGG Pathways
Map code Pathways E.C.

Compound table
Substrates Products Intermediates
KEGG-id C00868 C02764
E.C.
Compound tRNA uridine tRNA pseudouridine
Type amide group,nucleic acids amide group,nucleic acids
ChEBI
PubChem
1dj0A01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound
1dj0B01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound
1dj0A02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound
1dj0B02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound

Reference for Active-site residues
resource references E.C.
Swiss-prot;P07649

Active-site residues
PDB Catalytic residues Cofactor-binding residues Modified residues Main-chain involved in catalysis Comment
1dj0A01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1dj0B01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1dj0A02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 60
1dj0B02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 60

References for Catalytic Mechanism
References Sections No. of steps in catalysis
[3]
Scheme 2, p.349-350 4
[5]
Fig.3, p.13107 6
[9]
Fig.1, p.23 5
[10]
Fig.2, p.321-322 6

References
[1]
Resource
Comments
Medline ID
PubMed ID 9358157
Journal Nucleic Acids Res
Year 1997
Volume 25
Pages 4493-9
Authors Becker HF, Motorin Y, Planta RJ, Grosjean H
Title The yeast gene YNL292w encodes a pseudouridine synthase (Pus4) catalyzing the formation of psi55 in both mitochondrial and cytoplasmic tRNAs.
Related PDB
Related UniProtKB
[2]
Resource
Comments
Medline ID
PubMed ID 9585540
Journal Biochemistry
Year 1998
Volume 37
Pages 7268-76
Authors Arluison V, Hountondji C, Robert B, Grosjean H
Title Transfer RNA-pseudouridine synthetase Pus1 of Saccharomyces cerevisiae contains one atom of zinc essential for its native conformation and tRNA recognition.
Related PDB
Related UniProtKB
[3]
Resource
Comments ACTIVE SITE
Medline ID 98087694
PubMed ID 9425056
Journal Biochemistry
Year 1998
Volume 37
Pages 344-51
Authors Huang L, Pookanjanatavip M, Gu X, Santi DV
Title A conserved aspartate of tRNA pseudouridine synthase is essential for activity and a probable nucleophilic catalyst.
Related PDB
Related UniProtKB P07649
[4]
Resource
Comments
Medline ID
PubMed ID 10089432
Journal Acta Crystallogr D Biol Crystallogr
Year 1999
Volume 55
Pages 302-4
Authors Corollo D, Blair-Johnson M, Conrad J, Fiedler T, Sun D, Wang L, Ofengand J, Fenna R
Title Crystallization and characterization of a fragment of pseudouridine synthase RluC from Escherichia coli.
Related PDB
Related UniProtKB
[5]
Resource
Comments
Medline ID
PubMed ID 10529181
Journal Biochemistry
Year 1999
Volume 38
Pages 13106-11
Authors Ramamurthy V, Swann SL, Spedaliere CJ, Mueller EG
Title Role of cysteine residues in pseudouridine synthases of different families.
Related PDB
Related UniProtKB
[6]
Resource
Comments
Medline ID
PubMed ID 10428788
Journal J Biol Chem
Year 1999
Volume 274
Pages 22225-30
Authors Ramamurthy V, Swann SL, Paulson JL, Spedaliere CJ, Mueller EG
Title Critical aspartic acid residues in pseudouridine synthases.
Related PDB
Related UniProtKB
[7]
Resource
Comments
Medline ID
PubMed ID 10022901
Journal Mol Cell Biol
Year 1999
Volume 19
Pages 2142-54
Authors Massenet S, Motorin Y, Lafontaine DL, Hurt EC, Grosjean H, Branlant C
Title Pseudouridine mapping in the Saccharomyces cerevisiae spliceosomal U small nuclear RNAs (snRNAs) reveals that pseudouridine synthase pus1p exhibits a dual substrate specificity for U2 snRNA and tRNA.
Related PDB
Related UniProtKB
[8]
Resource
Comments
Medline ID
PubMed ID 10924141
Journal Biochemistry
Year 2000
Volume 39
Pages 9459-65
Authors Spedaliere CJ, Hamilton CS, Mueller EG
Title Functional importance of motif I of pseudouridine synthases: mutagenesis of aligned lysine and proline residues.
Related PDB
Related UniProtKB
[9]
Resource
Comments X-ray crystallography
Medline ID
PubMed ID 10625422
Journal Nat Struct Biol
Year 2000
Volume 7
Pages 23-7
Authors Foster PG, Huang L, Santi DV, Stroud RM
Title The structural basis for tRNA recognition and pseudouridine formation by pseudouridine synthase I.
Related PDB 1dj0
Related UniProtKB
[10]
Resource
Comments
Medline ID
PubMed ID 11976723
Journal Nat Struct Biol
Year 2002
Volume 9
Pages 320-2
Authors Mueller EG
Title Chips off the old block.
Related PDB
Related UniProtKB
[11]
Resource
Comments
Medline ID
PubMed ID 11953756
Journal Nat Struct Biol
Year 2002
Volume 9
Pages 353-8
Authors Sivaraman J, Sauve V, Larocque R, Stura EA, Schrag JD, Cygler M, Matte A
Title Structure of the 16S rRNA pseudouridine synthase RsuA bound to uracil and UMP.
Related PDB
Related UniProtKB
[12]
Resource
Comments
Medline ID
PubMed ID 12515383
Journal RNA
Year 2002
Volume 8
Pages 1502-14
Authors Fatica A, Dlakic M, Tollervey D
Title Naf1 p is a box H/ACA snoRNP assembly factor.
Related PDB
Related UniProtKB

Comments

Created Updated
2004-03-25 2009-02-26