Evidence map›Paper›PMID 39396041›Full record

ArticleNature communications2024

Principles of paralog-specific targeted protein degradation engaging the C-degron E3 KLHDC2.

Daniel C Scott, Suresh Dharuman, Elizabeth Griffith, Sergio C Chai, Jarrid Ronnebaum, Moeko T King, Rajendra Tangallapally, Chan Lee, Clifford T Gee, Lei Yang and 12 more

Abstract read
In one paragraph

Article in Nature communications, 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
–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

14 citing papers in PubMed.

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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

22 authors.

Daniel C Scott *Department of Structural Biology, St. Jude Children's Research Hospital, Memphis, TN, 38105, USA.
Suresh Dharuman *Department of Chemical Biology and Therapeutics, St. Jude Children's Research Hospital, Memphis, TN, USA.ORCID 0000-0002-5491-6677
Elizabeth GriffithDepartment of Chemical Biology and Therapeutics, St. Jude Children's Research Hospital, Memphis, TN, USA.
Sergio C ChaiDepartment of Chemical Biology and Therapeutics, St. Jude Children's Research Hospital, Memphis, TN, USA.ORCID 0000-0002-8257-8599
Jarrid RonnebaumDepartment of Chemical Biology and Therapeutics, St. Jude Children's Research Hospital, Memphis, TN, USA.
Moeko T KingDepartment of Structural Biology, St. Jude Children's Research Hospital, Memphis, TN, 38105, USA.ORCID 0000-0002-4192-8337
Rajendra TangallapallyDepartment of Chemical Biology and Therapeutics, St. Jude Children's Research Hospital, Memphis, TN, USA.
Chan LeeDepartment of Cell Biology, Harvard Medical School, Boston, MA, USA.ORCID 0000-0002-5512-8146
Clifford T GeeDepartment of Chemical Biology and Therapeutics, St. Jude Children's Research Hospital, Memphis, TN, USA.ORCID 0000-0001-7181-603X
Lei YangDepartment of Chemical Biology and Therapeutics, St. Jude Children's Research Hospital, Memphis, TN, USA.ORCID 0000-0002-3060-0790
Yong LiDepartment of Chemical Biology and Therapeutics, St. Jude Children's Research Hospital, Memphis, TN, USA.
Victoria C LoudonDepartment of Chemical Biology and Therapeutics, St. Jude Children's Research Hospital, Memphis, TN, USA.
Ha Won LeeDepartment of Chemical Biology and Therapeutics, St. Jude Children's Research Hospital, Memphis, TN, USA.ORCID 0000-0001-5382-9646
Jason OchoadaDepartment of Chemical Biology and Therapeutics, St. Jude Children's Research Hospital, Memphis, TN, USA.
Darcie J MillerDepartment of Structural Biology, St. Jude Children's Research Hospital, Memphis, TN, 38105, USA.
Thilina JayasingheDepartment of Chemical Biology and Therapeutics, St. Jude Children's Research Hospital, Memphis, TN, USA.ORCID 0000-0003-3436-0795
Joao A PauloDepartment of Cell Biology, Harvard Medical School, Boston, MA, USA.ORCID 0000-0002-4291-413X
Stephen J ElledgeDivision of Genetics, Brigham and Women's Hospital, Howard Hughes Medical Institute, Department of Genetics, Harvard Medical School, Boston, MA, USA.ORCID 0000-0001-7923-6283
J Wade HarperDepartment of Cell Biology, Harvard Medical School, Boston, MA, USA.ORCID 0000-0002-6944-7236
Taosheng ChenDepartment of Chemical Biology and Therapeutics, St. Jude Children's Research Hospital, Memphis, TN, USA.ORCID 0000-0001-6420-3809
Richard E LeeDepartment of Chemical Biology and Therapeutics, St. Jude Children's Research Hospital, Memphis, TN, USA. Richard.Lee@Stjude.org.ORCID 0000-0002-2397-0443
Brenda A SchulmanDepartment of Structural Biology, St. Jude Children's Research Hospital, Memphis, TN, 38105, USA. schulman@biochem.mpg.de.ORCID 0000-0002-3083-1126

Funding

Viral Vector Technology (VVTSR)P30CA021765 · NCI · ST. JUDE CHILDREN'S RESEARCH HOSPITAL · PI Shondra Michelle Miller · 1985 to 2026
$166.9M
X-ray Scattering Technology CoreP30GM133893 · NIGMS · BROOKHAVEN SCIENCE ASSOC-BROOKHAVEN LAB · PI Vivian Stojanoff · 2019 to 2026
$38.6M
Ubiquitin Mediated Proteolysis and Cell Cycle ControlR01AG011085 · NIA · HARVARD UNIVERSITY (MEDICAL SCHOOL) · PI JEFFREY W HARPER · 1993 to 2026
$10.9M
Chemical Biology of the Control of Neddylation by DCN1R01CA247365 · NCI · UNIVERSITY OF KENTUCKY · PI GUY, RODNEY KIPLIN, SCHULMAN, BRENDA A · 2019 to 2023
$3.2M
Advancing Multiplexed Isobaric Tag-based Strategies for Proteome ProfilingR01GM132129 · NIGMS · HARVARD MEDICAL SCHOOL · PI PAULO, JOAO A · 2019 to 2023
$1.7M
Howard Hughes Medical Institute (HHMI) InvestigatorMax-Planck-Gesellschaft (Max Planck Society) Schulman departmentNCI NIH HHS P30 CA021765NCI NIH HHS R01 CA247365NIA NIH HHS R01 AG011085NIGMS NIH HHS P30 GM133893NIGMS NIH HHS R01 GM132129U.S. Department of Health & Human Services | National Institutes of Health (NIH) R01GM132129U.S. Department of Health & Human Services | NIH | National Cancer Institute (NCI) NIH P30CA021765U.S. Department of Health & Human Services | NIH | National Institute on Aging (U.S. National Institute on Aging) NIH R01AG11085U.S. Department of Health & Human Services | NIH | NCI | Division of Cancer Epidemiology and Genetics, National Cancer Institute (National Cancer Institute Division of Cancer Epidemiology and Genetics) 5RO1CA247365
6 · The paper itself

Abstract

PROTAC® (proteolysis-targeting chimera) molecules induce proximity between an E3 ligase and protein-of-interest (POI) to target the POI for ubiquitin-mediated degradation. Cooperative E3-PROTAC-POI complexes have potential to achieve neo-substrate selectivity beyond that established by POI binding to the ligand alone. Here, we extend the collection of ubiquitin ligases employable for cooperative ternary complex formation to include the C-degron E3 KLHDC2. Ligands were identified that engage the C-degron binding site in KLHDC2, subjected to structure-based improvement, and linked to JQ1 for BET-family neo-substrate recruitment. Consideration of the exit vector emanating from the ligand engaged in KLHDC2's U-shaped degron-binding pocket enabled generation of SJ46421, which drives formation of a remarkably cooperative, paralog-selective ternary complex with BRD3

Indexed as

ProteolysisTranscription FactorsUbiquitin-Protein LigasesAzepinesBinding SitesCell Cycle ProteinsDegronsHEK293 CellsHumansLigandsProtein BindingSubstrate SpecificityTriazolesUbiquitinUbiquitinationAzepinesCell Cycle Proteins(+)-JQ1 compoundLigandsTranscription FactorsTriazolesUbiquitinUbiquitin-Protein Ligases

Identifiers

PMID39396041
PMCPMC11470957

What OpenQuestion holds

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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.