Conformational communication mediates the reset step in t6A biosynthesis.

Adenosine / analogs & derivatives Adenosine Triphosphatases / genetics Amino Acid Motifs Bacterial Proteins / chemistry Models, Molecular Mutagenesis Protein Conformation RNA, Transfer / chemistry Thermotoga maritima

Journal

Nucleic acids research
ISSN: 1362-4962
Titre abrégé: Nucleic Acids Res
Pays: England
ID NLM: 0411011

Informations de publication

Date de publication:
09 07 2019
Historique:
accepted: 09 05 2019
revised: 06 05 2019
received: 07 03 2019
pubmed: 23 5 2019
medline: 26 2 2020
entrez: 23 5 2019
Statut: ppublish

Résumé

The universally conserved N6-threonylcarbamoyladenosine (t6A) modification of tRNA is essential for translational fidelity. In bacteria, t6A biosynthesis starts with the TsaC/TsaC2-catalyzed synthesis of the intermediate threonylcarbamoyl adenylate (TC-AMP), followed by transfer of the threonylcarbamoyl (TC) moiety to adenine-37 of tRNA by the TC-transfer complex comprised of TsaB, TsaD and TsaE subunits and possessing an ATPase activity required for multi-turnover of the t6A cycle. We report a 2.5-Å crystal structure of the T. maritima TC-transfer complex (TmTsaB2D2E2) bound to Mg2+-ATP in the ATPase site, and substrate analog carboxy-AMP in the TC-transfer site. Site directed mutagenesis results show that residues in the conserved Switch I and Switch II motifs of TsaE mediate the ATP hydrolysis-driven reactivation/reset step of the t6A cycle. Further, SAXS analysis of the TmTsaB2D2-tRNA complex in solution reveals bound tRNA lodged in the TsaE binding cavity, confirming our previous biochemical data. Based on the crystal structure and molecular docking of TC-AMP and adenine-37 in the TC-transfer site, we propose a model for the mechanism of TC transfer by this universal biosynthetic system.

Identifiants

DOI: 10.1093/nar/gkz439 PMID: 31114923 PMC: PMC6614819
pubmed: 31114923
pii: 5494771
doi: 10.1093/nar/gkz439
pmc: PMC6614819
doi:

Substances chimiques

Bacterial Proteins 0
N(6)-(N-threonylcarbonyl)adenosine 24719-82-2
RNA, Transfer 9014-25-9
Adenosine Triphosphatases EC 3.6.1.-
Adenosine K72T3FS567

Types de publication

Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S.

Langues

eng

Sous-ensembles de citation

IM

Pagination

6551-6567

Subventions

Organisme : NIGMS NIH HHS
ID : R01 GM110588
Pays : United States

Informations de copyright

© The Author(s) 2019. Published by Oxford University Press on behalf of Nucleic Acids Research.

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Auteurs

Amit Luthra (A)

Department of Chemistry and Biochemistry, San Diego State University, 5500 Campanile Drive, San Diego, CA 92182, USA.

Naduni Paranagama (N)

Department of Chemistry and Biochemistry, San Diego State University, 5500 Campanile Drive, San Diego, CA 92182, USA.

William Swinehart (W)

Department of Chemistry, Portland State University, PO Box 751, Portland, OR 97207, USA.

Susan Bayooz (S)

Department of Chemistry and Biochemistry, San Diego State University, 5500 Campanile Drive, San Diego, CA 92182, USA.

Phuc Phan (P)

Department of Chemistry and Biochemistry, San Diego State University, 5500 Campanile Drive, San Diego, CA 92182, USA.

Vanessa Quach (V)

Department of Chemistry and Biochemistry, San Diego State University, 5500 Campanile Drive, San Diego, CA 92182, USA.

Jamie M Schiffer (JM)

Schrödinger, 10201 Wateridge Cir Suite 220, San Diego, CA 92121, USA.

Boguslaw Stec (B)

Department of Chemistry and Biochemistry, San Diego State University, 5500 Campanile Drive, San Diego, CA 92182, USA.

Dirk Iwata-Reuyl (D)

Department of Chemistry, Portland State University, PO Box 751, Portland, OR 97207, USA.

Manal A Swairjo (MA)

Department of Chemistry and Biochemistry, San Diego State University, 5500 Campanile Drive, San Diego, CA 92182, USA.
The Viral Information Institute, San Diego State University, 5500 Campanile Drive, San Diego, CA 92182, USA.

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Classifications MeSH

questionsmedicales.fr › Acides nucléiques, nucléotides et nucléosides › Nucléosides › Ribonucléosides › Adénosine › Conformational communication mediates the...
questionsmedicales.fr › Enzymes et coenzymes › Enzymes › Hydrolases › Acid anhydride hydrolases › Adenosine triphosphatases › Conformational communication mediates the...
questionsmedicales.fr › Phénomènes chimiques › Phénomènes biochimiques › Conformation moléculaire › Conformation des protéines › Structure secondaire des protéines › Motifs d'acides aminés › Conformational communication mediates the...
questionsmedicales.fr › Acides aminés, peptides et protéines › Protéines › Protéines bactériennes › Conformational communication mediates the...
questionsmedicales.fr › Techniques d'investigation › Modèles théoriques › Modèles moléculaires › Conformational communication mediates the...
questionsmedicales.fr › Phénomènes génétiques › Mutagenèse › Conformational communication mediates the...
questionsmedicales.fr › Phénomènes chimiques › Phénomènes biochimiques › Conformation moléculaire › Conformation des protéines › Conformational communication mediates the...
questionsmedicales.fr › Acides nucléiques, nucléotides et nucléosides › Acides nucléiques › ARN › ARN de transfert › Conformational communication mediates the...
questionsmedicales.fr › Bactéries › Bactéries à Gram négatif › Bactéries anaérobies à Gram négatif › Bâtonnets à Gram négatif anaérobies droits, incurvés et spiralés › Thermotoga › Thermotoga maritima › Conformational communication mediates the...