Any feedback?
Please rate this page
(enzyme.php)
(0/150)

BRENDA support

BRENDA Home
show all | hide all No of entries

Information on EC 4.6.1.16 - tRNA-intron lyase and Organism(s) Saccharomyces cerevisiae and UniProt Accession P39707

for references in articles please use BRENDA:EC4.6.1.16
Please wait a moment until all data is loaded. This message will disappear when all data is loaded.
EC Tree
IUBMB Comments
The enzyme catalyses the final stage in the maturation of tRNA molecules.
Specify your search results
Select one or more organisms in this record: ?
This record set is specific for:
Saccharomyces cerevisiae
UNIPROT: P39707 not found.
Show additional data
Do not include text mining results
Include (text mining) results
Include results (AMENDA + additional results, but less precise)
Word Map
hide
The taxonomic range for the selected organisms is: Saccharomyces cerevisiae
The expected taxonomic range for this enzyme is: Eukaryota, Archaea, Bacteria
Reaction Schemes
hide
pretRNA
=
a 3'-half-tRNA molecule with a 5'-OH end
+
a 5'-half-tRNA molecule with a 2',3'-cyclic phosphate end
+
an intron with a 2',3'-cyclic phosphate and a 5'-hydroxyl terminus
pretRNA
=
a 3'-half-tRNA molecule with a 5'-OH end
+
a 5'-half-tRNA molecule with a 2',3'-cyclic phosphate end
+
an intron with a 2',3'-cyclic phosphate and a 5'-hydroxyl terminus
Synonyms
homing endonuclease, i-tevi, splicing endonuclease, trna splicing endonuclease, hspc117, intron-encoded endonuclease, hclp1, trna-splicing endonuclease, af endonuclease, rna splicing endonuclease, more
SYNONYM
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
EndA
P16658; P39707; Q04675; Q02825
-
nuclease, transfer ribonucleate intron endoribo-
-
-
-
-
RNA-splicing endonuclease
-
-
Sen2
-
catalytic core of the enzyme complex
splicing endonuclease
transfer ribonucleate intron endoribonuclease
-
-
-
-
transfer splicing endonuclease
-
-
-
-
tRNA intron endonuclease
-
-
-
-
tRNA splicing endonuclease
tRNA-intron endonuclease
-
-
-
-
tRNATRPintron endonuclease
-
-
-
-
REACTION
REACTION DIAGRAM
COMMENTARY hide
ORGANISM
UNIPROT
LITERATURE
pretRNA = a 3'-half-tRNA molecule with a 5'-OH end + a 5'-half-tRNA molecule with a 2',3'-cyclic phosphate end + an intron with a 2',3'-cyclic phosphate and a 5'-hydroxyl terminus
show the reaction diagram
mechanism of substrate recognition
-
REACTION TYPE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
endoribonuclease reaction
-
-
-
-
PATHWAY SOURCE
PATHWAYS
-
-, -
SYSTEMATIC NAME
IUBMB Comments
pretRNA lyase (intron-removing; cyclic-2',3'-phosphate-forming)
The enzyme catalyses the final stage in the maturation of tRNA molecules.
CAS REGISTRY NUMBER
COMMENTARY hide
117444-13-0
-
SUBSTRATE
PRODUCT                       
REACTION DIAGRAM
ORGANISM
UNIPROT
COMMENTARY
(Substrate) hide
LITERATURE
(Substrate)
COMMENTARY
(Product) hide
LITERATURE
(Product)
Reversibility
r=reversible
ir=irreversible
?=not specified
pre-t-RNAarcheuka + H2O
?
show the reaction diagram
-
hybrid pre-tRNA molecule derived from yeast and archaea
-
-
?
pretRNA
a 3'-half-tRNA molecule with a 5'-OH end + a 5'-half-tRNA molecule with a 2',3'-cyclic phosphate end + an intron with a 2',3'-cyclic phosphate and a 5'-hydroxyl terminus
show the reaction diagram
-
-
-
-
?
tRNA + H2O
tRNA containing 5'hydroxy and 2',3'-cyclic phosphate termini
show the reaction diagram
-
The enzyme is responsible for the excision of introns from nuclear transfer RNA (tRNA) and all archaeal RNAs.
-
-
?
tRNA precursor
a 3'-half-tRNA molecule with a 5'-OH end + a 5'-half-tRNA molecule with a 2',3'-cyclic phosphate end + an intron with a 2',3'-cyclic phosphate and a 5'-hydroxyl terminus
show the reaction diagram
additional information
?
-
-
enzyme contains two functionally independent active sites for 5’ and 3’ splicing
-
-
?
NATURAL SUBSTRATE
NATURAL PRODUCT
REACTION DIAGRAM
ORGANISM
UNIPROT
COMMENTARY
(Substrate) hide
LITERATURE
(Substrate)
COMMENTARY
(Product) hide
LITERATURE
(Product)
REVERSIBILITY
r=reversible
ir=irreversible
?=not specified
pretRNA
a 3'-half-tRNA molecule with a 5'-OH end + a 5'-half-tRNA molecule with a 2',3'-cyclic phosphate end + an intron with a 2',3'-cyclic phosphate and a 5'-hydroxyl terminus
show the reaction diagram
-
-
-
-
?
tRNA + H2O
tRNA containing 5'hydroxy and 2',3'-cyclic phosphate termini
show the reaction diagram
-
The enzyme is responsible for the excision of introns from nuclear transfer RNA (tRNA) and all archaeal RNAs.
-
-
?
tRNA precursor
a 3'-half-tRNA molecule with a 5'-OH end + a 5'-half-tRNA molecule with a 2',3'-cyclic phosphate end + an intron with a 2',3'-cyclic phosphate and a 5'-hydroxyl terminus
show the reaction diagram
-
-
-
-
?
INHIBITOR
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
Mg2+
-
at high concentrations
monovalent cations
-
at high concentrations
-
p-hydroxymercuribenzoate
-
-
ACTIVATING COMPOUND
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
nonionic detergents
-
stimulate activity of the endonuclease in the membrane fraction
-
spermidine
-
or spermine required
spermine
-
or spermidine required, enhances extent and accuracy of cleavage, degree of stimulation varies with the pre-tRNA substrate
SPECIFIC ACTIVITY [µmol/min/mg]
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
additional information
-
-
pH RANGE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
7 - 8
-
active in the range
TEMPERATURE OPTIMUM
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
ORGANISM
COMMENTARY hide
LITERATURE
UNIPROT
SEQUENCE DB
SOURCE
LOCALIZATION
ORGANISM
UNIPROT
COMMENTARY hide
GeneOntology No.
LITERATURE
SOURCE
-
integral membrane protein
Manually annotated by BRENDA team
UNIPROT
ENTRY NAME
ORGANISM
NO. OF AA
NO. OF TRANSM. HELICES
MOLECULAR WEIGHT[Da]
SOURCE
SEQUENCE
LOCALIZATION PREDICTION?
A0A8H4BY47_YEASX
377
0
44109
TrEMBL
other Location (Reliability: 2)
A0A8H4C039_YEASX
275
0
31313
TrEMBL
other Location (Reliability: 3)
MOLECULAR WEIGHT
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
100000
-
x * 100000, polypeptide A, + y * 52500, polypeptide B, + z * 40700, polypeptide C, + v * 29500, polypeptide D, + 4 minor polypeptides of MW 140000, 120000, 90000 and 70000 are detected in SDS-PAGE of most highly purified fraction, probably polypeptides B, C, and D exist as a trimeric complex and represent the tRNA splicing endonuclease
146000
-
deduced from gene sequences of subunits
15000
-
alphabetagammadelta, 1 * 54000, 1 * 44000, 1* 34000, 1 * 15000, SDS-PAGE
29500
-
x * 100000, polypeptide A, + y * 52500, polypeptide B, + z * 40700, polypeptide C, + v * 29500, polypeptide D, + 4 minor polypeptides of MW 140000, 120000, 90000 and 70000 are detected in SDS-PAGE of most highly purified fraction, probably polypeptides B, C, and D exist as a trimeric complex and represent the tRNA splicing endonuclease
40700
-
x * 100000, polypeptide A, + y * 52500, polypeptide B, + z * 40700, polypeptide C, + v * 29500, polypeptide D, + 4 minor polypeptides of MW 140000, 120000, 90000 and 70000 are detected in SDS-PAGE of most highly purified fraction, probably polypeptides B, C, and D exist as a trimeric complex and represent the tRNA splicing endonuclease
44000
-
alphabetagammadelta, 1 * 54000, 1 * 44000, 1* 34000, 1 * 15000, SDS-PAGE
52500
-
x * 100000, polypeptide A, + y * 52500, polypeptide B, + z * 40700, polypeptide C, + v * 29500, polypeptide D, + 4 minor polypeptides of MW 140000, 120000, 90000 and 70000 are detected in SDS-PAGE of most highly purified fraction, probably polypeptides B, C, and D exist as a trimeric complex and represent the tRNA splicing endonuclease
54000
-
alphabetagammadelta, 1 * 54000, 1 * 44000, 1* 34000, 1 * 15000, SDS-PAGE
SUBUNIT
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
multimer
-
x * 100000, polypeptide A, + y * 52500, polypeptide B, + z * 40700, polypeptide C, + v * 29500, polypeptide D, + 4 minor polypeptides of MW 140000, 120000, 90000 and 70000 are detected in SDS-PAGE of most highly purified fraction, probably polypeptides B, C, and D exist as a trimeric complex and represent the tRNA splicing endonuclease
tetramer
PROTEIN VARIANTS
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
H297A
-
catalytically inactive
TEMPERATURE STABILITY
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
37
-
rapid inactivation above
PURIFICATION (Commentary)
ORGANISM
UNIPROT
LITERATURE
partial, strain M304
-
CLONED (Commentary)
ORGANISM
UNIPROT
LITERATURE
genes of all four subunits, each of them being essential
-
REF.
AUTHORS
TITLE
JOURNAL
VOL.
PAGES
YEAR
ORGANISM (UNIPROT)
PUBMED ID
SOURCE
Peebles, C.L.; Gegenheimer, P.; Abelson, J.
Precise excision of intervening sequences from precursor tRNAs by a membrane-associated yeast endonuclease
Cell
32
525-536
1983
Saccharomyces cerevisiae, Saccharomyces cerevisiae M304
Manually annotated by BRENDA team
Green, P.R.; Abelson, J.N.
Highly purified transfer RNA splicing endonuclease from Saccharomyces cerevisiae
Methods Enzymol.
181
471-480
1990
Saccharomyces cerevisiae, Saccharomyces cerevisiae 20B-12-1
Manually annotated by BRENDA team
Miao, F.; Abelson, J.
Yeast tRNA-splicing endonuclease cleaves precursor tRNA in a random pathway
J. Biol. Chem.
268
672-677
1993
Saccharomyces cerevisiae, Saccharomyces cerevisiae 20B-12-1
Manually annotated by BRENDA team
Fabbri, S.; Fruscoloni, P.; Bufardeci, E.; Di Nicola Negri, E.; Baldi, M.I.; Attardi, D.G.; Mattoccia, E.; Tocchini-Valentini, G.P.
Conservation of substrate recognition mechanisms by tRNA splicing endonucleases
Science
280
284-286
1998
Saccharomyces cerevisiae, Saccharolobus solfataricus, Xenopus laevis
Manually annotated by BRENDA team
Abelson, J.; Trotta, C.R.; Li, H.
tRNA splicing
J. Biol. Chem.
273
12685-12688
1998
Saccharomyces cerevisiae, Haloferax volcanii, Methanocaldococcus jannaschii, Xenopus laevis
Manually annotated by BRENDA team
Trotta, C.R.; Miao, F.; Arn, E.A.; Stevens, S.W.; Ho, C.K.; Rauhut, R.; Abelson, J.N.
The yeast tRNA splicing endonuclease: a tetrameric enzyme with two active site subunits homologous to the archaeal tRNA endonucleases
Cell
89
849-858
1997
Saccharomyces cerevisiae
Manually annotated by BRENDA team
Yoshihisa, T.; Yunoki-Esaki, K.; Ohshima, C.; Tanaka, N.; Endo, T.
Possibility of cytoplasmic pre-tRNA splicing: the yeast tRNA splicing endonuclease mainly localizes on the mitochondria
Mol. Biol. Cell
14
3266-3279
2003
Saccharomyces cerevisiae
Manually annotated by BRENDA team
Calvin, K.; Li, H.
RNA-splicing endonuclease structure and function
Cell. Mol. Life Sci.
65
1176-1185
2008
Saccharomyces cerevisiae
Manually annotated by BRENDA team
Yoshihisa, T.; Ohshima, C.; Yunoki-Esaki, K.; Endo, T.
Cytoplasmic splicing of tRNA in Saccharomyces cerevisiae
Genes Cells
12
285-297
2007
Saccharomyces cerevisiae
Manually annotated by BRENDA team
Dhungel, N.; Hopper, A.K.
Beyond tRNA cleavage: novel essential function for yeast tRNA splicing endonuclease unrelated to tRNA processing
Genes Dev.
26
503-514
2012
Saccharomyces cerevisiae
Manually annotated by BRENDA team
Hirata, A.
Recent insights into the structure, function, and evolution of the RNA-splicing endonucleases
Front. Genet.
10
103
2019
Candidatus Micrarchaeum acidiphilum ARMAN-2 (C7DIA5), Archaeoglobus fulgidus (O29362), Saccharomyces cerevisiae (P16658 AND P39707 AND Q04675 AND Q02825), Saccharomyces cerevisiae, Methanocaldococcus jannaschii (Q58819), Nanoarchaeum equitans (Q74MP4), Homo sapiens (Q8NCE0 AND Q9BSV6 AND Q8WW01 AND Q7Z6J9), Homo sapiens, Methanopyrus kandleri (Q8TGZ5), Pyrobaculum aerophilum (Q8ZVI1), Thermoplasma acidophilum (Q9HIY5), Aeropyrum pernix (Q9YE85), Aeropyrum pernix ATCC 700893 (Q9YE85), Archaeoglobus fulgidus ATCC 49558 (O29362), Methanocaldococcus jannaschii ATCC 43067 (Q58819), Saccharomyces cerevisiae ATCC 204508 (P16658 AND P39707 AND Q04675 AND Q02825), Pyrobaculum aerophilum ATCC 51768 (Q8ZVI1), Thermoplasma acidophilum ATCC 25905 (Q9HIY5)
Manually annotated by BRENDA team