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Literature summary for 2.1.1.229 extracted from
- Unexpected accumulation of ncm5U and ncm5S2U in a trm9 mutant suggests an additional step in the synthesis of mcm5U and mcm5S2U (2011), PLoS ONE, 6, e20783.
Activating Compound
| Activating Compound | Comment | Organism | Structure |
|---|---|---|---|
| Trm112 p | the presence of Trm112p dramatically improves the methyltransferase activity of Trm9p in vitro | Saccharomyces cerevisiae |
Cloned(Commentary)
| Cloned (Comment) | Organism |
|---|---|
| co-expression of His-tagged Trm9p with untagged Trm112p in Escherichia coli strain BL21(DE3)pLysS, Trm9p/Trm112p complex formation | Saccharomyces cerevisiae |
Metals/Ions
| Metals/Ions | Comment | Organism | Structure |
|---|---|---|---|
| Mg2+ | required | Saccharomyces cerevisiae |  |
Natural Substrates/ Products (Substrates)
| Natural Substrates | Organism | Comment (Nat. Sub.) | Natural Products | Comment (Nat. Pro.) | Rev. | Reac. |
|---|---|---|---|---|---|---|
| additional information | Saccharomyces cerevisiae | alternative mechanisms in formation of the 5-carboxymethyluridine34 side chain at wobble position, overview | ? | - |
? | |
| S-adenosyl-L-methionine + carboxymethyluridine34 in tRNA | Saccharomyces cerevisiae | - |
S-adenosyl-L-homocysteine + 5-(2-methoxy-2-oxoethyl)uridine34 in tRNA | - |
? | |
Organism
| Organism | UniProt | Comment | Textmining |
|---|---|---|---|
| Saccharomyces cerevisiae | - |
gene TRM9 | - |
Purification (Commentary)
| Purification (Comment) | Organism |
|---|---|
| co-purification of His-tagged Trm9p with untagged Trm112p as a complex from Escherichia coli strain BL21(DE3)pLysS by nickel affinity chromatography | Saccharomyces cerevisiae |
Substrates and Products (Substrate)
| Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
|---|---|---|---|---|---|---|
| additional information | alternative mechanisms in formation of the 5-carboxymethyluridine34 side chain at wobble position, overview | Saccharomyces cerevisiae | ? | - |
? | |
| S-adenosyl-L-methionine + carboxymethyluridine34 in tRNA | - |
Saccharomyces cerevisiae | S-adenosyl-L-homocysteine + 5-(2-methoxy-2-oxoethyl)uridine34 in tRNA | - |
? | |
Synonyms
| Synonyms | Comment | Organism |
|---|---|---|
| Trm9p | - |
Saccharomyces cerevisiae |
Temperature Optimum [°C]
| Temperature Optimum [°C] | Temperature Optimum Maximum [°C] | Comment | Organism |
|---|---|---|---|
| 37 | - |
assay at | Saccharomyces cerevisiae |
pH Optimum
| pH Optimum Minimum | pH Optimum Maximum | Comment | Organism |
|---|---|---|---|
| 7.5 | - |
assay at | Saccharomyces cerevisiae |
General Information
| General Information | Comment | Organism |
|---|---|---|
| malfunction | 5-methoxycarbonylmethyl-uridine or 5-methoxycarbonylmethyl-2-thiouridine are absent in tRNAs in trm9DELTA or trm112DELTA mutants, while intermediates 5-carbamoylmethyluridine and 5-methoxycarbonylmethyl-2-thiouridine are accumulating | Saccharomyces cerevisiae |
| metabolism | Trm9p and Trm112p function together at the final step in formation of 5-methoxycarbonylmethyl-uridine in tRNA by using the intermediate 5-carbamoylmethyluridine as a substrate | Saccharomyces cerevisiae |
| physiological function | at position 34, the majority of yeast cytosolic tRNA species that have a uridine are modified to 5-carbamoylmethyluridine, 5-carbamoylmethyl-2'-O-methyluridine, 5-methoxycarbonylmethyl-uridine or 5-methoxycarbonylmethyl-2-thiouridine. The formation of 5-methoxycarbonylmethyl-uridine and 5-carbamoylmethyluridine side chains involves a complex pathway, where the last step in formation of mcm5 is a methyl esterification of 5-carboxymethyl dependent on the Trm9 and Trm112 proteins. Both Trm9 and Trm112 are required for the last step in formation of 5-methoxycarbonylmethyl side chains at wobble uridines | Saccharomyces cerevisiae |
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