7UYN

Crystal structure of B-form alien DNA 5'-CTTBPPBBSSZZSAAG in a host-guest complex with the N-terminal fragment of Moloney murine leukemia virus reverse transcriptase

Summary for 7UYN

• Entry DOI: 10.2210/pdb7uyn/pdb
• Descriptor: reverse transcriptase, DNA (5'-D(*CP*TP*TP*(IGU)P*(1WA)P*(1WA)P*(IGU)P*(IGU))-3'), DNA (5'-D(P*(JSP)P*(JSP)P*(1W5)P*(1W5)P*(JSP)P*AP*AP*G)-3'), ... (4 entities in total)
• Functional Keywords: unnatural dna, dna binding protein, dna binding protein-dna complex, dna binding protein/dna
• Biological source: Moloney murine leukemia virus; More
• Total number of polymer chains: 3
• Total formula weight: 35012.87

Authors

Georgiadis, M.M. (deposition date: 2022-05-06, release date: 2023-05-10, Last modification date: 2023-10-25)

Primary citation

Shukla, M.S.,Hoshika, S.,Benner, S.A.,Georgiadis, M.M.
Crystal structures of 'ALternative Isoinformational ENgineered' DNA in B-form.
Philos.Trans.R.Soc.Lond.B Biol.Sci., 378:20220028-20220028, 2023

PubMed Abstract: The first structural model of duplex DNA reported in 1953 by Watson & Crick presented the double helix in B-form, the form that genomic DNA exists in much of the time. Thus, artificial DNA seeking to mimic the properties of natural DNA should also be able to adopt B-form. Using a host-guest system in which Moloney murine leukemia virus reverse transcriptase serves as the host and DNA as the guests, we determined high-resolution crystal structures of three complexes including 5'-CTTAAG, 5'-CTTAAG and 5'-CTTAAG with 10 consecutive unnatural nucleobase pairs in B-form within self-complementary 16 bp duplex oligonucleotides. We refer to this ALternative Isoinformational ENgineered (ALIEN) genetic system containing two nucleobase pairs (, pairing 2-amino-imidazo-[1,2-]-1,3,5-triazin-(8)-4-one with 6-amino-5-nitro-(1)-pyridin-2-one, and , 6-amino-4-hydroxy-5-(1)-purin-2-one with 3-methyl-6-amino-pyrimidin-2-one) as ALIEN DNA. We characterized both position- and sequence-specific helical, nucleobase pair and dinucleotide step parameters of and pairs in the context of B-form DNA. We conclude that ALIEN DNA exhibits structural features that vary with sequence. Further, can participate in alternative stacking modes within a similar sequence context as captured in two different structures. This finding suggests that ALIEN DNA may have a larger repertoire of B-form structures than natural DNA. This article is part of the theme issue 'Reactivity and mechanism in chemical and synthetic biology'.

PubMed: 36633282
DOI: 10.1098/rstb.2022.0028

Experimental method

X-RAY DIFFRACTION (1.65 Å)