4GCW

Crystal structure of RNase Z in complex with precursor tRNA(Thr)

Summary for 4GCW

• Entry DOI: 10.2210/pdb4gcw/pdb
• Related: 1Y44 2FK6
• Descriptor: Ribonuclease Z, TRNA(THR), ZINC ION, ... (5 entities in total)
• Functional Keywords: zinc-dependent metalo betalactamase - rna complex, trna maturase, protein-rna complex, trna binding, hydrolase-rna complex, hydrolase/rna
• Biological source: Bacillus subtilis subsp. subtilis; More
• Total number of polymer chains: 2
• Total formula weight: 60556.36

Authors

Pellegrini, O.,Li de la Sierra-Gallay, I.,Piton, J.,Gilet, L.,Condon, C. (deposition date: 2012-07-31, release date: 2012-10-31, Last modification date: 2023-09-13)

Primary citation

Pellegrini, O.,Li de la Sierra-Gallay, I.,Piton, J.,Gilet, L.,Condon, C.
Activation of tRNA Maturation by Downstream Uracil Residues in B. subtilis
Structure, 20:1769-1777, 2012

PubMed Abstract: Ribonuclease (RNase) Z is involved in the maturation of the 3' ends of transfer RNAs (tRNAs) in all three kingdoms of life. To prevent futile cycles of CCA addition and removal, eukaryotic RNase Z discriminates against mature tRNAs bearing a CCA motif, with the first cytosine residue (C74) being the key antideterminant. Here, we show that, remarkably, the B. subtilis enzyme does not discriminate against cytosine in position 74, but rather is highly stimulated by uracil in this location. Consistent with this observation, the vast majority of B. subtilis tRNA precursor substrates of RNase Z naturally contain U74. Those tRNA precursors with a uracil further downstream are also substrates for RNase Z, but are matured in a two-step endo/exonuclease reaction. We solved the first crystal structure of B. subtilis RNase Z bound to a tRNA(Thr) precursor with U74 and show that the enzyme has a specific binding pocket for this nucleotide.

PubMed: 22940585
DOI: 10.1016/j.str.2012.08.002

Experimental method

X-RAY DIFFRACTION (3 Å)