Evidence map›Paper›PMID 38501509›Full record

ArticleProtein science : a publication of the Protein Society2024

Structural dynamics and functional cooperativity of human NQO1 by ambient temperature serial crystallography and simulations.

Alice Grieco, Sergio Boneta, José A Gavira, Angel L Pey, Shibom Basu, Julien Orlans, Daniele de Sanctis, Milagros Medina, Jose Manuel Martin-Garcia

Open access · hybridAbstract read
In one paragraph

Article in Protein science : a publication of the Protein Society, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.

0numbers the graph read from it
0cells of the map it votes in
14citing papers in PubMed
3.5field-weighted citation impact, top 7% 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

14 citing papers in PubMed, 15 citations in OpenAlex.

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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 5 institutions in 4 countries.

Alice GriecoDepartment of Crystallography and Structural Biology, Institute of Physical Chemistry Blas Cabrera, Spanish National Research Council (CSIC), Madrid, Spain.
Sergio BonetaDepartamento de Bioquímica y Biología Molecular y Celular e Instituto de Biocomputación y Física de Sistemas Complejos (BIFI), Universidad de Zaragoza, Zaragoza, Spain.
José A GaviraLaboratory of Crystallographic Studies, IACT (CSIC-UGR), Armilla, Spain.
Angel L PeyDepartamento de Química Física, Unidad de Excelencia en Química Aplicada a Biomedicina y Medioambiente e Instituto de Biotecnología, Universidad de Granada, Granada, Spain.
Shibom BasuEuropean Molecular Biology Laboratory, Grenoble, France.
Julien OrlansESRF-The European Synchrotron, Grenoble, France.
Daniele de SanctisESRF-The European Synchrotron, Grenoble, France.
Milagros MedinaDepartamento de Bioquímica y Biología Molecular y Celular e Instituto de Biocomputación y Física de Sistemas Complejos (BIFI), Universidad de Zaragoza, Zaragoza, Spain.ORCID 0000-0001-8743-0182
Jose Manuel Martin-GarciaDepartment of Crystallography and Structural Biology, Institute of Physical Chemistry Blas Cabrera, Spanish National Research Council (CSIC), Madrid, Spain.ORCID 0000-0002-4558-3858
Consejo Superior de Investigaciones Científicas · ESEuropean Synchrotron Radiation Facility · FRUniversidad de Zaragoza · ESEuropean Molecular Biology Laboratory · FRUniversidad de Granada · ES

Funding

Comunidad de Madrid 2019-T1/BMD-15552Consejería de Economía, Conocimiento, Empresas y Universidad, Junta de Andalucía P18-RT-2413ERDF/Counseling of Economic Transformation, Industry, Knowledge and Universities B-BIO-84-UGR20ERDF/Spanish Ministry of Science, Innovation and Universities-State Research Agency RTI2018-096246-B-I00Gobierno de Aragón E35-23RMCIN/AEI/10.13039/501100011033/ERDF MCIN/AEI/PID2022-136369NB-I00The European Union NextGenerationEU/PRTR CNS2022-135713
6 · The paper itself

Abstract

The human NQO1 (hNQO1) is a flavin adenine nucleotide (FAD)-dependent oxidoreductase that catalyzes the two-electron reduction of quinones to hydroquinones, being essential for the antioxidant defense system, stabilization of tumor suppressors, and activation of quinone-based chemotherapeutics. Moreover, it is overexpressed in several tumors, which makes it an attractive cancer drug target. To decipher new structural insights into the flavin reductive half-reaction of the catalytic mechanism of hNQO1, we have carried serial crystallography experiments at new ID29 beamline of the ESRF to determine, to the best of our knowledge, the first structure of the hNQO1 in complex with NADH. We have also performed molecular dynamics simulations of free hNQO1 and in complex with NADH. This is the first structural evidence that the hNQO1 functional cooperativity is driven by structural communication between the active sites through long-range propagation of cooperative effects across the hNQO1 structure. Both structural results and MD simulations have supported that the binding of NADH significantly decreases protein dynamics and stabilizes hNQO1 especially at the dimer core and interface. Altogether, these results pave the way for future time-resolved studies, both at x-ray free-electron lasers and synchrotrons, of the dynamics of hNQO1 upon binding to NADH as well as during the FAD cofactor reductive half-reaction. This knowledge will allow us to reveal unprecedented structural information of the relevance of the dynamics during the catalytic function of hNQO1.

Indexed as

Antineoplastic AgentsNeoplasmsCrystallographyCrystallography, X-RayFlavinsHumansNADNAD(P)H Dehydrogenase (Quinone)TemperatureAntineoplastic AgentsFlavinsNADNAD(P)H Dehydrogenase (Quinone)NQO1 protein, humancooperativityflavoenzymehuman NQO1microcrystalsoxidoreductaseprotein dynamicsserial synchrotron x-ray crystallography

Identifiers

PMID38501509
PMCPMC10949395
OpenAlexW4392956345

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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.