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Literature summary extracted from

  • Noma, A.; Kirino, Y.; Ikeuchi, Y.; Suzuki, T.
    Biosynthesis of wybutosine, a hyper-modified nucleoside in eukaryotic phenylalanine tRNA (2006), EMBO J., 25, 2142-2154.
    View publication on PubMedView publication on EuropePMC

Cloned(Commentary)

EC Number Cloned (Comment) Organism
2.1.1.282 hexahistidine-tagged enzyme is expressed in Saccharomyces cerevisiae Saccharomyces cerevisiae

Protein Variants

EC Number Protein Variants Comment Organism
4.1.3.44 C479A mutation in the conserved C479xxxC483xxC486 motif of the radical-Ado-Met domain, complete loss of activity Saccharomyces cerevisiae
4.1.3.44 C483A mutation in the conserved C479xxxC483xxC486 motif of the radical-Ado-Met domain, complete loss of activity Saccharomyces cerevisiae
4.1.3.44 C486A mutation in the conserved C479xxxC483xxC486 motif of the radical-Ado-Met domain, complete loss of activity Saccharomyces cerevisiae
4.1.3.44 E532A mutation in a candidate GGE motif in the radical Ado-Met domain, no loss of activity Saccharomyces cerevisiae
4.1.3.44 E550A mutation in a candidate GGE motif in the radical Ado-Met domain, complete loss of activity Saccharomyces cerevisiae

Natural Substrates/ Products (Substrates)

EC Number Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
2.1.1.282 S-adenosyl-L-methionine + 7-[(3S)-(3-amino-3-carboxypropyl)-4-demethyl]wyosine37 in tRNAPhe Saccharomyces cerevisiae the enzyme is involved in the biosynthesis of the tricyclic base wybutosine S-adenosyl-L-homocysteine + 7-[(3S)-(3-amino-3-carboxypropyl)-4-methyl]wyosine37 in tRNAPhe
-
 ?

Organism

EC Number Organism UniProt Comment Textmining
2.1.1.282 Saccharomyces cerevisiae P53177
-
-
2.1.1.290 Saccharomyces cerevisiae
-
-
-
2.1.1.290 Saccharomyces cerevisiae BY4742
-
-
-
2.3.1.231 Saccharomyces cerevisiae
-
-
-
2.3.1.231 Saccharomyces cerevisiae BY4742
-
-
-
4.1.3.44 Saccharomyces cerevisiae Q08960
-
-
4.1.3.44 Saccharomyces cerevisiae ATCC 204508 Q08960
-
-

Purification (Commentary)

EC Number Purification (Comment) Organism
2.1.1.290 Ni+-chelating column chromatography Saccharomyces cerevisiae
2.3.1.231 Ni2+-chelating column chromatography Saccharomyces cerevisiae

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
2.1.1.282 S-adenosyl-L-methionine + 7-[(3S)-(3-amino-3-carboxypropyl)-4-demethyl]wyosine37 in tRNAPhe the enzyme is involved in the biosynthesis of the tricyclic base wybutosine Saccharomyces cerevisiae S-adenosyl-L-homocysteine + 7-[(3S)-(3-amino-3-carboxypropyl)-4-methyl]wyosine37 in tRNAPhe
-
 ?
2.1.1.290 additional information the enzyme catalyzes methylation of the carboxyl group of the methionine moiety in wybutosine-72 to convert it to wybutosine-58. TYW4 is a bifunctional enzyme to synthesize wybutosine by catalyzing methylation and methoxycarbonylation of wybutosine -72 Saccharomyces cerevisiae ?
-
 ?
2.1.1.290 additional information the enzyme catalyzes methylation of the carboxyl group of the methionine moiety in wybutosine-72 to convert it to wybutosine-58. TYW4 is a bifunctional enzyme to synthesize wybutosine by catalyzing methylation and methoxycarbonylation of wybutosine -72 Saccharomyces cerevisiae BY4742 ?
-
 ?
2.1.1.290 S-adenosyl-L-methionine + 7-[(3S)-3-amino-3-carboxypropyl]wyosine58 in tRNA
-
 Saccharomyces cerevisiae S-adenosyl-L-homocysteine + wybutosine58 in tRNA
-
 ?
2.1.1.290 S-adenosyl-L-methionine + 7-[(3S)-3-amino-3-carboxypropyl]wyosine58 in tRNA
-
 Saccharomyces cerevisiae BY4742 S-adenosyl-L-homocysteine + wybutosine58 in tRNA
-
 ?
2.1.1.290 S-adenosyl-L-methionine + 7-[(3S)-3-amino-3-carboxypropyl]wyosine72 in tRNA
-
 Saccharomyces cerevisiae S-adenosyl-L-homocysteine + wybutosine72 in tRNAPhe
-
 ?
2.1.1.290 S-adenosyl-L-methionine + 7-[(3S)-3-amino-3-carboxypropyl]wyosine72 in tRNA
-
 Saccharomyces cerevisiae BY4742 S-adenosyl-L-homocysteine + wybutosine72 in tRNAPhe
-
 ?
2.3.1.231 S-adenosyl-L-methionine + 7-[(3S)-3-amino-3-(methoxycarbonyl)propyl]wyosine-187 in tRNAPhe + CO2
-
 Saccharomyces cerevisiae S-adenosyl-L-homocysteine + wybutosine-187 in tRNAPhe
-
 ?
2.3.1.231 S-adenosyl-L-methionine + 7-[(3S)-3-amino-3-(methoxycarbonyl)propyl]wyosine-187 in tRNAPhe + CO2
-
 Saccharomyces cerevisiae BY4742 S-adenosyl-L-homocysteine + wybutosine-187 in tRNAPhe
-
 ?
2.3.1.231 S-adenosyl-L-methionine + 7-[(3S)-3-amino-3-carboxypropyl]wyosine72 in tRNAPhe the enzyme catalyzes methylation of the carboxyl group of the methionine moiety in wybutosine-72 to convert it to wybutosine-58 Saccharomyces cerevisiae S-adenosyl-L-homocysteine + wybutosine-72 in tRNAPhe
-
 ?
2.3.1.231 S-adenosyl-L-methionine + 7-[(3S)-3-amino-3-carboxypropyl]wyosine72 in tRNAPhe the enzyme catalyzes methylation of the carboxyl group of the methionine moiety in wybutosine-72 to convert it to wybutosine-58 Saccharomyces cerevisiae BY4742 S-adenosyl-L-homocysteine + wybutosine-72 in tRNAPhe
-
 ?

Synonyms

EC Number Synonyms Comment Organism
2.1.1.282 TYW3
-
 Saccharomyces cerevisiae
2.1.1.282 YGL050w
-
 Saccharomyces cerevisiae
2.1.1.290 tRNA-yW synthesizing protein 4
-
 Saccharomyces cerevisiae
2.1.1.290 TYW4
-
 Saccharomyces cerevisiae
2.1.1.290 YOL141w
-
 Saccharomyces cerevisiae
2.3.1.231 tRNA-yW synthesizing enzyme 4
-
 Saccharomyces cerevisiae
2.3.1.231 TYW4
-
 Saccharomyces cerevisiae
4.1.3.44 TYW1
-
 Saccharomyces cerevisiae
4.1.3.44 YPL207W locus name Saccharomyces cerevisiae

Cofactor

EC Number Cofactor Comment Organism Structure
2.1.1.290 S-adenosyl-L-methionine
-
 Saccharomyces cerevisiae
2.3.1.231 S-adenosyl-L-methionine
-
 Saccharomyces cerevisiae
4.1.3.44 [4Fe-4S]-center
-
 Saccharomyces cerevisiae

General Information

EC Number General Information Comment Organism
2.1.1.282 malfunction in DELTATYW3 strain, tRNAPhe has two wybutosine intermediates, 7-(3-amino-3-carboxypropyl)-4-demethylwyosine37 (yW-86) and 4-demethylwyosine37 (yW-14). Recombinant TYW3 clearly methylated 7-(3-amino-3-carboxypropyl)-4-demethylwyosine37 in tRNA to yield 7-(3-amino-3-carboxypropyl)-4-methylwyosine37 in tRNA in S-adenosyl-L-methionine-dependent manner. 4-Demethylwyosine37 is not methylated by TYW3 Saccharomyces cerevisiae
2.1.1.282 physiological function the enzyme is involved in the biosynthesis of the tricyclic base wybutosine Saccharomyces cerevisiae
4.1.3.44 physiological function genes YPL207w, YML005w, YGL050w and YOL141w, named TYW1, TYW2, TYW3 and TYW4, respectively are essential for wybutosine synthesis. TYW1 is an iron-sulfur (Fe-S) cluster protein responsible for the tricyclic formation Saccharomyces cerevisiae