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Literature summary for 2.9.1.3 extracted from

  • Wolfe, M.D.; Ahmed, F.; Lacourciere, G.M.; Lauhon, C.T.; Stadtman, T.C.; Larson, T.J.
    Functional diversity of the rhodanese homology domain the Escherichia coli ybbB gene encodes a selenophosphate-dependent tRNA 2-selenouridine synthase (2004), J. Biol. Chem., 279, 1801-1809 .
    View publication on PubMed
Search for more literature for 2.9.1.3

Cloned(Commentary)

Cloned (Comment) Organism
overexpression in Escherichia coli BL21(DE3) Escherichia coli

Protein Variants

Protein Variants Comment Organism
C96S wild-type enzyme and mutant enzyme C96S produce similar amounts of 75Se-labeled tRNA Escherichia coli
C97S no evidence of tRNA modification with 75Se in vivo Escherichia coli

Natural Substrates/ Products (Substrates)

Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
selenophosphate + geranyl diphosphate + 5-methylaminomethyl-2-thiouridine34 in tRNA + H2O Escherichia coli ybbB is required in vivo for the specific substitution of selenium for sulfur in 2-thiouridine residues in Escherichia coli tRNA. This modified tRNA nucleoside, 5-methylaminomethyl-2-selenouridine (mnm5se2U), is located at the wobble position of the anticodons of tRNALys, tRNAGlu, and tRNA1Gln 5-methylaminomethyl-2-selenouridine34 in tRNA + (2E)-3,7-dimethylocta-2,6-diene-1-thiol + diphosphate + phosphate
-
 ?
selenophosphate + geranyl diphosphate + 5-methylaminomethyl-2-thiouridine34 in tRNA + H2O Escherichia coli TL524 ybbB is required in vivo for the specific substitution of selenium for sulfur in 2-thiouridine residues in Escherichia coli tRNA. This modified tRNA nucleoside, 5-methylaminomethyl-2-selenouridine (mnm5se2U), is located at the wobble position of the anticodons of tRNALys, tRNAGlu, and tRNA1Gln 5-methylaminomethyl-2-selenouridine34 in tRNA + (2E)-3,7-dimethylocta-2,6-diene-1-thiol + diphosphate + phosphate
-
 ?

Organism

Organism UniProt Comment Textmining
Escherichia coli
-
-
-
Escherichia coli TL524
-
-
-

Purification (Commentary)

Purification (Comment) Organism
-
 Escherichia coli

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
selenophosphate + geranyl diphosphate + 5-methylaminomethyl-2-thiouridine34 in tRNA + H2O
-
 Escherichia coli 5-methylaminomethyl-2-selenouridine34 in tRNA + (2E)-3,7-dimethylocta-2,6-diene-1-thiol + diphosphate + phosphate
-
 ?
selenophosphate + geranyl diphosphate + 5-methylaminomethyl-2-thiouridine34 in tRNA + H2O ybbB is required in vivo for the specific substitution of selenium for sulfur in 2-thiouridine residues in Escherichia coli tRNA. This modified tRNA nucleoside, 5-methylaminomethyl-2-selenouridine (mnm5se2U), is located at the wobble position of the anticodons of tRNALys, tRNAGlu, and tRNA1Gln Escherichia coli 5-methylaminomethyl-2-selenouridine34 in tRNA + (2E)-3,7-dimethylocta-2,6-diene-1-thiol + diphosphate + phosphate
-
 ?
selenophosphate + geranyl diphosphate + 5-methylaminomethyl-2-thiouridine34 in tRNA + H2O
-
 Escherichia coli TL524 5-methylaminomethyl-2-selenouridine34 in tRNA + (2E)-3,7-dimethylocta-2,6-diene-1-thiol + diphosphate + phosphate
-
 ?
selenophosphate + geranyl diphosphate + 5-methylaminomethyl-2-thiouridine34 in tRNA + H2O ybbB is required in vivo for the specific substitution of selenium for sulfur in 2-thiouridine residues in Escherichia coli tRNA. This modified tRNA nucleoside, 5-methylaminomethyl-2-selenouridine (mnm5se2U), is located at the wobble position of the anticodons of tRNALys, tRNAGlu, and tRNA1Gln Escherichia coli TL524 5-methylaminomethyl-2-selenouridine34 in tRNA + (2E)-3,7-dimethylocta-2,6-diene-1-thiol + diphosphate + phosphate
-
 ?

Synonyms

Synonyms Comment Organism
ybbB
-
 Escherichia coli

General Information

General Information Comment Organism
malfunction an Escherichia coli mutant deficient in ybbB is incapable of incorporating selenium into tRNA Escherichia coli