We have re-determined the crystal structure of yeast tRNA(Phe) to 2. 0 A resolution using 15 year old crystals. The accuracy of the new structure, due both to higher resolution data and formerly unavailable refinement methods, consolidates the previous structural information, but also reveals novel details ...
We have re-determined the crystal structure of yeast tRNA(Phe) to 2. 0 A resolution using 15 year old crystals. The accuracy of the new structure, due both to higher resolution data and formerly unavailable refinement methods, consolidates the previous structural information, but also reveals novel details. In particular, the water structure around the tightly bound Mg(2+) is now clearly resolved, and hence provides more accurate information on the geometry of the magnesium-binding sites and the role of water molecules in coordinating the metal ions to the tRNA. We have assigned a total of ten magnesium ions and identified a partly conserved geometry for high-affinity Mg(2+ )binding. In the electron density map there is also clear density for a spermine molecule binding in the major groove of the TPsiC arm and also contacting a symmetry-related tRNA molecule. Interestingly, we have also found that two specific regions of the tRNA in the crystals are partially cleaved. The sites of hydrolysis are within the D and anticodon loops in the vicinity of Mg(2+).
Related Citations:
High-resolution X-ray diffraction studies on a pure species of transfer RNA Ladner, J.E., Finch, J.T., Klug, A., Clark, B.F. (1972) J Mol Biol 72: 99
Structure of yeast phenylalanine tRNA at 3 A resolution Robertus, J.D., Ladner, J.E., Finch, J.T., Rhodes, D., Brown, R.S., Clark, B.F.C., Klug, A. (1974) Nature 250: 546
Structure of yeast phenylalanine transfer RNA at 2.5 A resolution Ladner, J.E., Jack, A., Robertus, J.D., Brown, R.S., Rhodes, D., Clark, B.F., Klug, A. (1975) Proc Natl Acad Sci U S A 72: 4414
Further refinement of the structure of yeast tRNA Phe Hingerty, B., Brown, R.S., Jack, A. (1978) J Mol Biol 124: 523
Restrained refinement of the monoclinic form of yeast phenylalanine transfer RNA. Temperature factors and dynamics, coordinated waters, and base-pair propeller twist angles Westhof, E., Sundaralingam, M. (1986) Biochemistry 25: 4868
Restrained refinement of two crystalline forms of yeast aspartic acid and phenylalanine transfer RNA crystals Westhof, E., Dumas, P., Moras, D. (1988) Acta Crystallogr A 44: 112
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