PMID:9174093
| Citation |
Easterwood, TR and Harvey, SC (1997) Ribonuclease P RNA: models of the 15/16 bulge from Escherichia coli and the P15 stem loop of Bacillus subtilis. RNA 3:577-85 |
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| Abstract |
The Escherichia coli ribonuclease P RNA 15/16 internal bulge loop and the Bacillus subtilis P15 stem loop are important substrate binding sites for the CCA-3' terminus of pre-tRNA. Models of E. coli 15/16 bulge loop and the B. subtilis P15 stem loop have been constructed using MC-SYM, a constraint satisfaction program. The models use covariation analysis data for suggesting initial base pairings, chemical probing, and protection/modification results to determine particular pairing orientations, and mutational experimental analysis data for tRNA-RNase P RNA contacts. The structures from E. coli and B. subtilis, although different in secondary structure, have similar sequence and function. Using MC-SYM, we are able to illustrate how the 3' end of the pre-tRNA is able to interact with this segment of the catalytic RNase P RNA. In addition, we propose additional hydrogen bonding between A76 in the 3' terminus of the tRNA and the 15/16 region of E. coli and to the loop of B. subtilis. |
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| Keywords |
Bacillus subtilis/chemistry; Base Sequence; Binding Sites; Computer Simulation; Endoribonucleases/chemistry; Escherichia coli/chemistry; Escherichia coli Proteins; Hydrogen Bonding; Models, Molecular; Molecular Sequence Data; Nucleic Acid Conformation; RNA Precursors; RNA, Bacterial/chemistry; RNA, Catalytic/chemistry; RNA, Transfer; Ribonuclease P; Species Specificity |
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