Evidence map›Paper›PMID 30339352›Full record

ArticleBiochemistry2018

Bitopic Inhibition of ATP and Substrate Binding in Ser/Thr Kinases through a Conserved Allosteric Mechanism.

Ning Ma, Lisa G Lippert, Titu Devamani, Benjamin Levy, Sangbae Lee, Manbir Sandhu, Nagarajan Vaidehi, Sivaraj Sivaramakrishnan

Abstract read
In one paragraph

Article in Biochemistry, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.

0numbers the graph read from it
0cells of the map it votes in
10citing papers in PubMed
0.6field-weighted citation impact, top 33% 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

10 citing papers in PubMed, 16 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

8 authors at 2 institutions in 1 country.

Ning MaDepartment of Computational and Quantitative Medicine , Beckman Research Institute of the City of Hope , Duarte , California 91010 , United States.ORCID 0000-0003-4653-7797
Lisa G LippertDepartment of Genetics, Cell Biology, and Development , University of Minnesota , Minneapolis , Minnesota 55455 , United States.
Titu DevamaniDepartment of Genetics, Cell Biology, and Development , University of Minnesota , Minneapolis , Minnesota 55455 , United States.
Benjamin LevyDepartment of Computational and Quantitative Medicine , Beckman Research Institute of the City of Hope , Duarte , California 91010 , United States.
Sangbae LeeDepartment of Computational and Quantitative Medicine , Beckman Research Institute of the City of Hope , Duarte , California 91010 , United States.
Manbir SandhuDepartment of Computational and Quantitative Medicine , Beckman Research Institute of the City of Hope , Duarte , California 91010 , United States.
Nagarajan VaidehiDepartment of Computational and Quantitative Medicine , Beckman Research Institute of the City of Hope , Duarte , California 91010 , United States.ORCID 0000-0001-8100-8132
Sivaraj SivaramakrishnanDepartment of Genetics, Cell Biology, and Development , University of Minnesota , Minneapolis , Minnesota 55455 , United States.ORCID 0000-0002-9541-6994
City of Hope · USUniversity of Minnesota · US

Funding

Emergent cellular functions of GPCRs and myosinsR35GM126940 · NIGMS · UNIVERSITY OF MINNESOTA · PI Sivaraj Sivaramakrishnan · 2018 to 2026
$3.8M
Structural dynamics underlying GPCR-G protein selectivityR01GM117923 · NIGMS · BECKMAN RESEARCH INSTITUTE/CITY OF HOPE · PI VAIDEHI, NAGARAJAN · 2017 to 2024
$3.8M
The kinase toolbox: Mapping the spatial and temporal regulation of cell signalingDP2CA186752 · NCI · UNIVERSITY OF MINNESOTA · PI SIVARAMAKRISHNAN, SIVARAJ · 2013 to 2013
$2.3M
Computationally Guided Design of Thermostable mutants of Neurotensin receptor1R01GM097261 · NIGMS · BECKMAN RESEARCH INSTITUTE/CITY OF HOPE · PI VAIDEHI, NAGARAJAN · 2011 to 2018
$2.3M
NCI NIH HHS DP2 CA186752NIGMS NIH HHS R01 GM097261NIGMS NIH HHS R01 GM117923NIGMS NIH HHS R35 GM126940
6 · The paper itself

Abstract

Protein kinases achieve substrate selective phosphorylation through their conformational flexibility and dynamic interaction with the substrate. Designing substrate selective or kinase selective small molecule inhibitors remains a challenge because of a lack of understanding of the dynamic mechanism by which substrates are selected by the kinase. Using a combination of all-atom molecular dynamics simulations and FRET sensors, we have delineated an allosteric mechanism that results in interaction among the DFG motif, G-loop, and activation loop and structurally links the nucleotide and substrate binding interfaces in protein kinase Cα and three other Ser/Thr kinases. ATP-competitive staurosporine analogues engage this allosteric switch region located just outside the ATP binding site to displace substrate binding to varying degrees. These inhibitors function as bitopic ligands by occupying the ATP binding site and interacting with the allosteric switch region. The conserved mechanism identified in this study can be exploited to select and design bitopic inhibitors for kinases.

Indexed as

Adenosine TriphosphateAllosteric RegulationAllosteric SiteBinding SitesHumansLigandsMolecular Dynamics SimulationPhosphorylationProtein Kinase C-alphaProtein Kinase InhibitorsSerineThreonineAdenosine TriphosphateLigandsPRKCA protein, humanProtein Kinase C-alphaProtein Kinase InhibitorsSerineThreonine

Identifiers

PMID30339352
PMCPMC6432918
OpenAlexW2897600200

What OpenQuestion holds

Textmetadata
LicenceTDM
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.