Crystallization (Comment) | Organism |
---|---|
native and selenomethionylated purified enzyme PabTrmU54 in complex with S-adenosyl-L-homocysteine, hanging-drop by vapor diffusion method, 0.001 ml of a mixture of protein and S-adenosyl-L-methionine in a 1:2 molar ratiomixed with 0.001 ml of 0.6 ml reservoir solution containing 15% PEG 8000, 0.05 M ammonium sulfate, 0.1 M sodium citrate, pH 5.6,18°C, few days, X-ray diffraction structure determination and analysi at 1.9 A resolution, molecular replacement, modelling | Pyrococcus abyssi |
Metals/Ions | Comment | Organism | Structure |
---|---|---|---|
additional information | the enzyme might contain a [Fe4S4] cluster, overview | Pyrococcus abyssi |
Natural Substrates | Organism | Comment (Nat. Sub.) | Natural Products | Comment (Nat. Pro.) | Rev. | Reac. |
---|---|---|---|---|---|---|
additional information | Pyrococcus abyssi | the enzyme emerged through an ancient horizontal transfer of an RNA (uracil, C5)-methyltransferase-like gene from bacteria to archaea | ? | - |
? | |
S-adenosyl-L-methionine + tRNA containing uridine at position 54 | Pyrococcus abyssi | - |
S-adenosyl-L-homocysteine + tRNA containing ribothymidine at position 54 | - |
? |
Organism | UniProt | Comment | Textmining |
---|---|---|---|
Pyrococcus abyssi | Q9UZR7 | - |
- |
Purification (Comment) | Organism |
---|---|
native and selenomethionylated enzyme by nickel affinity chromatography | Pyrococcus abyssi |
Substrates | Comment Substrates | Organism | Products | Comment (Products) | Rev. | Reac. |
---|---|---|---|---|---|---|
additional information | the enzyme emerged through an ancient horizontal transfer of an RNA (uracil, C5)-methyltransferase-like gene from bacteria to archaea | Pyrococcus abyssi | ? | - |
? | |
additional information | structure-function analysis using mini-tRNA stem-loop, overview | Pyrococcus abyssi | ? | - |
? | |
S-adenosyl-L-methionine + tRNA containing uridine at position 54 | - |
Pyrococcus abyssi | S-adenosyl-L-homocysteine + tRNA containing ribothymidine at position 54 | - |
? | |
S-adenosyl-L-methionine + tRNA containing uridine at position 54 | the enzyme purified under aerobic conditions is specific for tRNA but not rRNA, and specifically modifies the U54 position in the T-C loop of yeast tRNAAsp. A tRNA lacking both the D and anticodon stem-loops is recognized by PabTrmU54 | Pyrococcus abyssi | S-adenosyl-L-homocysteine + tRNA containing ribothymidine at position 54 | The adenine ring of S-adenosyl-L-homocysteine makes van der Waals and hydrophobic interactions with residues S300 and Y278. The sugar ring of S-adenosyl-L-homocysteine stacks on P342 whereas its two oxygen atoms form H-bonds with the carboxylate group of D299. The terminal carboxylate of the homocysteine moiety is hydrogen bonded to the hydroxyl group of T283 and the amide side chain of Q252 | ? |
Subunits | Comment | Organism |
---|---|---|
More | the enzyme contains an N-terminal TRAM domain, structure-function analysis, overview | Pyrococcus abyssi |
Synonyms | Comment | Organism |
---|---|---|
PabTrmU54 | - |
Pyrococcus abyssi |
S-adenosyl-L-methionine-dependent tRNA (uracil-54, C5)-methyltransferase | - |
Pyrococcus abyssi |
tRNA (uracil-54, C5)-methyltransferase | - |
Pyrococcus abyssi |
Temperature Optimum [°C] | Temperature Optimum Maximum [°C] | Comment | Organism |
---|---|---|---|
50 | - |
assay at | Pyrococcus abyssi |
pH Optimum Minimum | pH Optimum Maximum | Comment | Organism |
---|---|---|---|
7.2 | - |
assay at | Pyrococcus abyssi |
Cofactor | Comment | Organism | Structure |
---|---|---|---|
S-adenosyl-L-methionine | dependent on | Pyrococcus abyssi |