2016
DOI: 10.1021/acs.biochem.6b00214
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Single-Molecule Force Spectroscopy Studies of APOBEC3A–Single-Stranded DNA Complexes

Abstract: APOBEC3A (A3A) inhibits the replication of a range of viruses and transposons and might also play a role in carcinogenesis. It is a single-domain deaminase enzyme that interacts with single-stranded DNA (ssDNA) and converts cytidines to uridines within specific trinucleotide contexts. Although there is abundant information that describes the potential biological activities of A3A, the interplay between binding ssDNA and sequence-specific deaminase activity remains controversial. Using a single-molecule atomic … Show more

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Cited by 9 publications
(12 citation statements)
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“…However, a crystal structure revealed A3A forms a homodimer mediated by a zinc-coordinated domain swap. While these data support a model of cooperative substrate binding and deamination [57] , AFM showed A3A was predominantly monomeric when bound to ssDNA 123 , 124 , in agreement with the recent crystallographic 76 , 77 and NMR-based analyses [80] of A3A with ssDNA. Dimerization of A3B through a catalytic domain interface has been reported [125] but several structural studies have suggested A3B oligomerization occurs through the noncatalytic domain 60 , 72 , 77 , 86 .…”
Section: Rna Binding To A3g and A3b May Competitively And Allostericasupporting
confidence: 87%
“…However, a crystal structure revealed A3A forms a homodimer mediated by a zinc-coordinated domain swap. While these data support a model of cooperative substrate binding and deamination [57] , AFM showed A3A was predominantly monomeric when bound to ssDNA 123 , 124 , in agreement with the recent crystallographic 76 , 77 and NMR-based analyses [80] of A3A with ssDNA. Dimerization of A3B through a catalytic domain interface has been reported [125] but several structural studies have suggested A3B oligomerization occurs through the noncatalytic domain 60 , 72 , 77 , 86 .…”
Section: Rna Binding To A3g and A3b May Competitively And Allostericasupporting
confidence: 87%
“…3739 Moreover, theoretical simulations predict that HFBI adsorbs to CH 3 -SAM preferably with its hydrophobic patch toward the surface. 40 Previous studies have shown for polymers 41 and DNA strands 42 as well as for proteins 37 and peptides 43 binding toward hydrophobic surfaces a range of force values between 50 and 200 pN. Adhesin proteins expressed by bacteria showed a similar behavior toward the hydrophobic surfaces.…”
Section: Resultsmentioning
confidence: 94%
“…For example, by (nano) indenting or stretching materials, their mechanical properties, such as adhesion and elasticity, can be precisely measured and mapped on the surface [100][101][102][103][104]. AFMbased nanoindentation and force spectroscopy has been applied to study many biological and bioinspired systems, including bacterial adhesive material [105], viruses [106][107][108][109][110][111][112][113][114][115][116][117][118], proteins [119][120][121][122][123][124][125], nucleic acids [126][127][128][129][130], cells [131][132][133], and plant cell walls [134]. The mechanical properties of the materials can be connected to the processes of material nucleation and self-assembly [100][101][102][103].…”
Section: Introductionmentioning
confidence: 99%