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Minimal protein-only/RNA-free Ribonuclease P from Hydrogenobacter thermophilus
Structural highlights
FunctionD3DIV8_HYDTT RNA-free RNase P that catalyzes the removal of the 5'-leader sequence from pre-tRNA to produce the mature 5'-terminus.[HAMAP-Rule:MF_01078] Publication Abstract from PubMedtRNAs are typically transcribed with extended 5' and 3' ends that must be removed before they attain their active form. One of the first steps of tRNA processing in nearly every organism is the removal of the 5' leader sequence by ribonuclease P (RNase P). Here, we investigate a newly discovered class of RNase P enzymes, Homologs of Aquifex RNase P (HARPs). In contrast to other RNase Ps, HARPs consist only of a metallonuclease domain and lack the substrate recognition domains essential in other classes of RNase P enzymes. We determined the cryo-EM structure of A. aeolicus HARP (Aq880) and two crystal structures of H. thermophilus HARP (Hth1307) to reveal that both enzymes form large ring-like assemblies: a dodecamer in Aq880 and a tetradecamer in Hth1307. In both oligomers, the enzyme active site is 42 A away from a positively charged helical region, as seen in other protein-only RNase P enzymes, which likely serves to recognize and bind the elbow region of the pre-tRNA substrate. In addition, we use native mass spectrometry (MS) to confirm and characterize the previously unreported tetradecamer state. Notably, we find that multiple oligomeric states of Hth1307 are able to cleave pre-tRNAs. Furthermore, our single-turnover kinetic studies indicate that Hth1307 cleaves pre-tRNAs from multiple species with a preference for native substrates. These data provide a closer look at the nuanced similarities and differences in tRNA processing across disparate classes of RNase P. Bacterial RNA-free RNase P: structural and functional characterization of multiple oligomeric forms of a minimal protein-only ribonuclease P.,Wilhelm CA, Mallik L, Kelly AL, Brotzman S, Mendoza J, Anders AG, Leskaj S, Castillo C, Ruotolo BT, Cianfrocco MA, Koutmos M J Biol Chem. 2023 Oct 6:105327. doi: 10.1016/j.jbc.2023.105327. PMID:37806495[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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