Evidence map›Paper›PMID 33673243›Full record

ArticleViruses2021

Small-Angle X-ray Scattering Models of APOBEC3B Catalytic Domain in a Complex with a Single-Stranded DNA Inhibitor.

Fareeda M Barzak, Timothy M Ryan, Maksim V Kvach, Harikrishnan M Kurup, Hideki Aihara, Reuben S Harris, Vyacheslav V Filichev, Elena Harjes, Geoffrey B Jameson

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Viruses, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing papers in PubMed
1.0field-weighted citation impact, top 29% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

5 citing papers in PubMed, 7 citations in OpenAlex.

  1. Clinical Implications of APOBEC3-Mediated Mutagenesis in Breast Cancer.Clinical cancer research : an official journal of the American Association for Cancer Research · 2023
    Review
  2. Article
  3. Article
  4. The current toolbox for APOBEC drug discovery.Trends in pharmacological sciences · 2022
    Review
  5. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

9 authors at 4 institutions in 3 countries.

Fareeda M BarzakSchool of Fundamental Sciences, Massey University, Private Bag 11 222, New Zealand.ORCID 0000-0001-8788-9516
Timothy M RyanSAXS/WAXS, Australian Synchrotron/ANSTO, 800 Blackburn Road, Clayton, VIC 3168, Australia.
Maksim V KvachSchool of Fundamental Sciences, Massey University, Private Bag 11 222, New Zealand.
Harikrishnan M KurupSchool of Fundamental Sciences, Massey University, Private Bag 11 222, New Zealand.ORCID 0000-0001-5517-9907
Hideki AiharaDepartment of Biochemistry, Molecular Biology, and Biophysics, University of Minnesota, Minneapolis, MN 55455, USA.
Reuben S HarrisDepartment of Biochemistry, Molecular Biology, and Biophysics, University of Minnesota, Minneapolis, MN 55455, USA.
Vyacheslav V FilichevSchool of Fundamental Sciences, Massey University, Private Bag 11 222, New Zealand.ORCID 0000-0002-7383-3025
Elena HarjesSchool of Fundamental Sciences, Massey University, Private Bag 11 222, New Zealand.
Geoffrey B JamesonSchool of Fundamental Sciences, Massey University, Private Bag 11 222, New Zealand.
Massey University · NZMaurice Wilkins Centre · NZUniversity of Minnesota · USAustralian Nuclear Science and Technology Organisation · AU

Funding

PROJECT 3 – BIOLOGY OF DNA DEAMINASES IN CANCERP01CA234228 · NCI · UNIVERSITY OF TEXAS HLTH SCIENCE CENTER · PI Rommie E Amaro · 2019 to 2026
$14.5M
Structural studies of viral replication and invasionR35GM118047 · NIGMS · UNIVERSITY OF MINNESOTA · PI Hideki Aihara · 2016 to 2026
$6.3M
NCI NIH HHS P01 CA234228NIGMS NIH HHS R35 GM118047Worldwide Cancer Research 16-1197
6 · The paper itself

Abstract

In normal cells APOBEC3 (A3A-A3H) enzymes as part of the innate immune system deaminate cytosine to uracil on single-stranded DNA (ssDNA) to scramble DNA in order to give protection against a range of exogenous retroviruses, DNA-based parasites, and endogenous retroelements. However, some viruses and cancer cells use these enzymes, especially A3A and A3B, to escape the adaptive immune response and thereby lead to the evolution of drug resistance. We have synthesized first-in-class inhibitors featuring modified ssDNA. We present models based on small-angle X-ray scattering (SAXS) data that (1) confirm that the mode of binding of inhibitor to an active A3B C-terminal domain construct in the solution state is the same as the mode of binding substrate to inactive mutants of A3A and A3B revealed in X-ray crystal structures and (2) give insight into the disulfide-linked inactive dimer formed under the oxidizing conditions of purification.

Indexed as

Catalytic DomainCytidine DeaminaseDimerizationDNA, Single-StrandedHumansMinor Histocompatibility AntigensMutationRetroviridaeRetroviridae InfectionsRNA, ViralScattering, Small AngleAPOBEC3B protein, humanCytidine DeaminaseDNA, Single-StrandedMinor Histocompatibility AntigensRNA, ViralAPOBECAPOBEC3APOBEC3BAPOBEC inhibitorscancer evolutiondimerdrug resistanceSAXSvirus restriction

Identifiers

PMID33673243
PMCPMC7918907
OpenAlexW3133380754

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.