EC Number   |
Reference |
|---|
   2.1.1.228 | analysis of enzyme complex structures of Trm5b (MjTrm5b, PDB IDs 2YX1 and 3AY0) from Methanococcus jannaschii |
758348 |
| 2.1.1.228 | analysis of the crystal structure of apo-enzyme, of enzyme with bound ligand S-adenosyl-L-homocysteine (PDB IDs 5ZHI and 5ZHJ, respectively), and of enzyme with bound inhibitors N-(4-((octylamino)methyl)benzyl)-4-oxo-3,4-dihydrothieno[2,3-d]pyrimidine-5-carboxamide, N-([4-[(4-aminopiperidin-1-yl)methyl]phenyl]methyl)-4-oxo-3,4-dihydrothieno[2,3-d]pyrimidine-5-carboxamide , and N-(4-((cyclohexyl(ethyl)amino)methyl)benzyl)-4-oxo-3,4-dihydrothieno[2,3-d]pyrimidine-5-carboxamide, PDB IDs 6JOF, 5ZHK, and 5ZHL, respectively, at resolutions of 1.75-2.76 A. Sitting drop vapor diffusion method, mixing of 0.002 ml of protein solution with 0.001 ml of precipitant solution containing 100 mM Bis-Tris propane, pH 6.5, 20% w/v PEG3350, and 0.1 M ammonium acetate, soaking of crystals with 1-5 mM inhibitor or 5 mM SAH in their respective precipitating solution supplemented with 20% v/v glycerol, X-ray diffraction structure determination and analysis |
757409 |
| 2.1.1.228 | analysis of the crystal structure of enzyme with bound inhibitors N-([4-[(4-aminopiperidin-1-yl)methyl]phenyl]methyl)-4-oxo-3,4-dihydrothieno[2,3-d]pyrimidine-5-carboxamide, N-(4-((diethylamino)methyl)benzyl)-4-oxo-3,4-dihydrothieno-[2,3-d]pyrimidine-5-carboxamide, and N-(4-((octylamino)methyl)benzyl)-4-oxo-3,4-dihydrothieno[2,3-d]pyrimidine-5-carboxamide, PDB IDs 6JOE, 5ZHM, and 5ZHN, respectively. Hanging drop vapor diffusion method, mixing of equal volumes of 20 mg/m protein and precipitant solution containing 0.1 M Tris-HCl, pH 8.6-8.8, 20% v/v MPD, 20% w/v PEG 1000, and 5% w/v PEG200, and incubation at 20°C, soaking of crystals with 1-5 mM inhibitor in the precipitating solution supplemented with 20% v/v glycerol at 20°C for at least 4 h, X-ray diffraction structure determination and analysis |
757409 |
| 2.1.1.228 | analysis of the crystal structure of the Trm5-tRNA-AdoMet ternary complex |
721026 |
| 2.1.1.228 | crystal structure at 2.6 A resolution |
713482 |
| 2.1.1.228 | crystal structure of Trm5 in complex with the methyl donor analogue sinefungin at 2.2 A resolution, vapor diffusion method at 20°C |
701123 |
| 2.1.1.228 | crystal structure of TrmD complexed with S-adenosyl homocysteine, determined at 2.5 A resolution |
712737 |
| 2.1.1.228 | crystal structures of TrmD from Haemophilus influenzae, as binary complexes with either S-adenosyl-L-methionine or S-adenosyl-L-homocysteine, as a ternary complex with S-adenosyl-L-homocysteine and phosphate, and as an apo form |
661585 |
| 2.1.1.228 | purified enzyme in complex with Thermotoga maritima wild-type and mutant tRNA substrates, e.g. tRNAGlnCUG, and the S-adenosyl-L-methionine analogue sinefungin, X-ray crystal structure analysis, PDB ID 3AKZ |
737174 |
| 2.1.1.228 | purified enzyme in ternary complex with Thermotoga maritima wild-type and mutant tRNA substrates, e.g. tRNAGlnCUG, and the S-adenosyl-L-methionine analogue sinefungin, and enzyme in TrmD-AdoMet and TrmD-sinefungin binary complexes, 0.0012 ml of 10 mg/ml protein and 1 mM AdoMet or sinefungin, is mixed with 0.0012 ml of reservoir solution, consisting of 0.8-0.85 M sodium citrate and 0.1 M N-cyclohexyl-2-minoethanesulfonic acid, pH 8.0-8.4, 20°C, for the trinary complex 5 mg/ml protein is mixed with tRNA in a 5:1 ratio, and 1 mM sinefungin, 0.0012 ml are mixed with 0.0015 ml of reservoir solution containing 0.1 M sodium acetate trihydrate, pH 4.6, 0.8 M ammonium phosphate monobasic, and 4% w/v PEG 20,000, X-ray diffraction structure determination and analysis at 3.0 A, 1.55 A, and 1.6 A resolutions, respectively, structure modeling |
737174 |
