Synthesis and Polymerase Recognition of Threose Nucleic Acid Triphosphates Equipped with Diverse Chemical Functionalities

J Am Chem Soc. 2021 Oct 27;143(42):17761-17768. doi: 10.1021/jacs.1c08649. Epub 2021 Oct 12.

Abstract

Expanding the chemical space of evolvable non-natural genetic polymers (XNAs) to include functional groups that enhance protein target binding affinity offers a promising route to therapeutic aptamers with high biological stability. Here we describe the chemical synthesis and polymerase recognition of 10 chemically diverse functional groups introduced at the C-5 position of α-l-threofuranosyl uridine nucleoside triphosphate (tUTP). We show that the set of tUTP substrates is universally recognized by the laboratory-evolved polymerase Kod-RSGA. Insights into the mechanism of TNA synthesis were obtained from a high-resolution X-ray crystal structure of the postcatalytic complex bound to the primer-template duplex. A structural analysis reveals a large cavity in the enzyme active site that can accommodate the side chain of C-5-modified tUTP substrates. Our findings expand the chemical space of evolvable nucleic acid systems by providing a synthetic route to artificial genetic polymers that are uniformly modified with diversity-enhancing functional groups.

Publication types

  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Archaeal Proteins / chemistry
  • Archaeal Proteins / metabolism
  • Crystallography, X-Ray
  • DNA-Directed DNA Polymerase* / chemistry
  • DNA-Directed DNA Polymerase* / metabolism
  • Nucleosides / chemistry
  • Protein Binding
  • Tetroses* / chemical synthesis
  • Tetroses* / chemistry
  • Tetroses* / metabolism
  • Thermococcus / enzymology
  • Uridine Triphosphate* / analogs & derivatives
  • Uridine Triphosphate* / chemical synthesis
  • Uridine Triphosphate* / metabolism

Substances

  • alpha-L-threofuranosyl nucleoside triphosphate
  • Archaeal Proteins
  • DNA-Directed DNA Polymerase
  • erythrose
  • Nucleosides
  • Tetroses
  • Uridine Triphosphate