Crystal structures of the tRNA:m 2 G6 methyltransferase Trm14/TrmN from two domains of life
Open Access
- 22 February 2012
- journal article
- research article
- Published by Oxford University Press (OUP) in Nucleic Acids Research
- Vol. 40 (11), 5149-5161
- https://doi.org/10.1093/nar/gks163
Abstract
Methyltransferases (MTases) form a major class of tRNA-modifying enzymes needed for the proper functioning of tRNA. Recently, RNA MTases from the TrmN/Trm14 family that are present in Archaea, Bacteria and Eukaryota have been shown to specifically modify tRNA Phe at guanosine 6 in the tRNA acceptor stem. Here, we report the first X-ray crystal structures of the tRNA m 2 G6 ( N2 -methylguanosine) MTase TTC TrmN from Thermus thermophilus and its ortholog Pf Trm14 from Pyrococcus furiosus . Structures of Pf Trm14 were solved in complex with the methyl donor S -adenosyl- l -methionine (SAM or AdoMet), as well as the reaction product S -adenosyl-homocysteine (SAH or AdoHcy) and the inhibitor sinefungin. TTC TrmN and Pf Trm14 consist of an N-terminal THUMP domain fused to a catalytic Rossmann-fold MTase (RFM) domain. These results represent the first crystallographic structure analysis of proteins containing both THUMP and RFM domain, and hence provide further insight in the contribution of the THUMP domain in tRNA recognition and catalysis. Electrostatics and conservation calculations suggest a main tRNA binding surface in a groove between the THUMP domain and the MTase domain. This is further supported by a docking model of TrmN in complex with tRNA Phe of T. thermophilus and via site-directed mutagenesis.Keywords
This publication has 65 references indexed in Scilit:
- Substrate tRNA Recognition Mechanism of a Multisite-specific tRNA Methyltransferase, Aquifex aeolicus Trm1, Based on the X-ray Crystal StructurePublished by Elsevier BV ,2011
- FILTREST3D: discrimination of structural models using restraints from experimental dataBioinformatics, 2010
- Post-translational Modification of Ribosomal Proteins: STRUCTURAL AND FUNCTIONAL CHARACTERIZATION OF RimO FROM THERMOTOGA MARITIMA, A RADICAL S-ADENOSYLMETHIONINE METHYLTHIOTRANSFERASEPublished by Elsevier BV ,2010
- Stereochemical mechanisms of tRNA methyltransferasesFEBS Letters, 2009
- Aquifex aeolicus tRNA (N2,N2-Guanine)-dimethyltransferase (Trm1) Catalyzes Transfer of Methyl Groups Not Only to Guanine 26 but Also to Guanine 27 in tRNAJournal of Biological Chemistry, 2009
- Atomic structure of a folate/FAD-dependent tRNA T54 methyltransferaseProceedings of the National Academy of Sciences of the United States of America, 2009
- Crystal Structure of the Thermus thermophilus 16 S rRNA Methyltransferase RsmC in Complex with Cofactor and Substrate GuanosinePublished by Elsevier BV ,2008
- THUMP from archaeal tRNA:m22G10 methyltransferase, a genuine autonomously folding domainNucleic Acids Research, 2006
- Electrostatics of nanosystems: Application to microtubules and the ribosomeProceedings of the National Academy of Sciences of the United States of America, 2001
- Gapped BLAST and PSI-BLAST: a new generation of protein database search programsNucleic Acids Research, 1997