Evidence map›Paper›PMID 40324085›Full record

ArticleProceedings of the National Academy of Sciences of the United States of America2025

Activity and structure of human (d)CTP deaminase CDADC1.

Anton Slyvka, Ishan Rathore, Renbin Yang, Olga Gewartowska, Tapan Kanai, George T Lountos, Krzysztof Skowronek, Mariusz Czarnocki-Cieciura, Alexander Wlodawer, Matthias Bochtler

Abstract read
In one paragraph

Article in Proceedings of the National Academy of Sciences of the United States of America, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
–field-weighted citation impact
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

1 citing paper in PubMed.

  1. Cytidine and dCMP Deaminases-Current Methods of Activity Analysis.International journal of molecular sciences · 2025
    Review
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

10 authors.

Anton SlyvkaLaboratory of Structural Biology, International Institute of Molecular and Cell Biology in Warsaw, Warsaw 02-109, Poland.ORCID 0000-0002-3177-9040
Ishan RathoreCenter for Structural Biology, National Cancer Institute, NIH, Frederick, MD 21702.
Renbin YangCancer Research Technology Program, Leidos Biomedical Research Inc., Frederick, MD 21701.
Olga GewartowskaGenome Engineering Facility, International Institute of Molecular and Cell Biology in Warsaw, Warsaw 02-109, Poland.
Tapan KanaiCancer Research Technology Program, Leidos Biomedical Research Inc., Frederick, MD 21701.
George T LountosBasic Science Program, Frederick National Laboratory for Cancer Research, Frederick, MD 21702.ORCID 0000-0003-3463-8881
Krzysztof SkowronekBiophysics Facility, International Institute of Molecular and Cell Biology in Warsaw, Warsaw 02-109, Poland.ORCID 0000-0001-9973-7085
Mariusz Czarnocki-CieciuraLaboratory of Protein Structure, International Institute of Molecular and Cell Biology in Warsaw, Warsaw 02-109, Poland.ORCID 0000-0001-5582-2851
Alexander WlodawerCenter for Structural Biology, National Cancer Institute, NIH, Frederick, MD 21702.ORCID 0000-0002-5510-9703
Matthias BochtlerLaboratory of Structural Biology, International Institute of Molecular and Cell Biology in Warsaw, Warsaw 02-109, Poland.ORCID 0000-0001-7884-4463

Funding

WORK ORDER 126643 B539 EXPAND IC SUITE75N91019D00024 · NIAID · LEIDOS BIOMEDICAL RESEARCH, INC. · PI BRISCOE, LYNN · 2019 to 2025
$3932.6M
EC | HORIZON EUROPE Framework Programme (Horizon Europe) RRID:SCR_021630Fundacja na rzecz Nauki Polskiej (FNP) POIR.04.04.00-00-5D81/17-00Fundacja na rzecz Nauki Polskiej (FNP) START 79.2020Narodowa Agencja Wymiany Akademickiej (NAWA) PPI/APM/2018/1/00034Narodowe Centrum Nauki (NCN) 2018/30/Q/NZ2/00669NCI NIH HHS 75N91019D00024
6 · The paper itself

Abstract

Vertebrates have evolved an understudied protein termed CDADC1 (NYD-SP15) that contains an inactive N-terminal and active C-terminal DCTD-like domain. Here, we show that human CDADC1 is a (d)CTP-specific deaminase, with a roughly 2-fold in vitro preference for dCTP over CTP. We determined high-resolution cryo-EM structures of CDADC1 in the absence of substrate and in complex with dCTP and 5-methyl-dCTP. The structures show that CDADC1 forms trimers and dimers of trimers in solution. The (d)CTP substrate is selected by a narrow pocket for the cytosine base and multiple lysine and arginine contacts to the triphosphate. Substrate binding promotes the association of trimers into hexamers and the transition of the hexamers from a loose to a tighter arrangement. Genetic experiments in mice show that loss of Cdadc1 is surprisingly well tolerated, even in the absence of the dCMP deaminase Dctd that is considered as the main source of dUMP, the precursor of dTTP.

Indexed as

Cytidine DeaminaseAnimalsCryoelectron MicroscopyCytidine TriphosphateHumansMiceModels, MolecularProtein ConformationSubstrate SpecificityCytidine DeaminaseCytidine Triphosphatecryoelectron microscopycytidine deaminasenucleotide metabolismtriphosphate

Identifiers

PMID40324085
PMCPMC12088426

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.