Evidence map›Paper›PMID 35716663›Full record

ArticleStructure (London, England : 1993)2022

Structural basis for tunable affinity and specificity of LxCxE-dependent protein interactions with the retinoblastoma protein family.

Sivasankar Putta, Lucia Alvarez, Stephan Lüdtke, Peter Sehr, Gerd A Müller, Samantha M Fernandez, Sarvind Tripathi, Joe Lewis, Toby J Gibson, Lucia B Chemes and 1 more

Open access · greenAbstract read
In one paragraph

Article in Structure (London, England : 1993), 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.

0numbers the graph read from it
0cells of the map it votes in
11citing papers in PubMed
1.6field-weighted citation impact, top 15% 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

11 citing papers in PubMed, 15 citations in OpenAlex.

  1. Chromatin association promotes UBR5-mediated degradation of Rb.bioRxiv : the preprint server for biology · 2026
    Article
  2. Review
  3. Review
  4. Article
  5. Article
  6. Article
  7. Crystal structure of the tegument protein UL82 (pp71) from human cytomegalovirus.Protein science : a publication of the Protein Society · 2024
    Article
  8. Article
  9. Article
  10. Vital for Viruses: Intrinsically Disordered Proteins.Journal of molecular biology · 2023
    Review
  11. 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

11 authors at 4 institutions in 3 countries.

Sivasankar PuttaDepartment of Chemistry and Biochemistry, University of California, Santa Cruz, CA 95064, USA.
Lucia AlvarezInstituto de Investigaciones Biotecnológicas (IIBiO-CONICET), Escuela de Bio y Nanotecnologías (EByN), Universidad Nacional de San Martín, Av. 25 de Mayo y Francia, Buenos Aires CP1650, Argentina.
Stephan LüdtkeBelyntic GmbH, Richard-Willstätter-Str. 11, 12489 Berlin, Germany.
Peter SehrChemical Biology Core Facility, European Molecular Biology Laboratory, 69117 Heidelberg, Germany.
Gerd A MüllerDepartment of Chemistry and Biochemistry, University of California, Santa Cruz, CA 95064, USA.
Samantha M FernandezDepartment of Chemistry and Biochemistry, University of California, Santa Cruz, CA 95064, USA.
Sarvind TripathiDepartment of Chemistry and Biochemistry, University of California, Santa Cruz, CA 95064, USA.
Joe LewisChemical Biology Core Facility, European Molecular Biology Laboratory, 69117 Heidelberg, Germany.
Toby J GibsonStructural and Computational Biology Unit, European Molecular Biology Laboratory, 69117 Heidelberg, Germany.
Lucia B ChemesInstituto de Investigaciones Biotecnológicas (IIBiO-CONICET), Escuela de Bio y Nanotecnologías (EByN), Universidad Nacional de San Martín, Av. 25 de Mayo y Francia, Buenos Aires CP1650, Argentina. Electronic address: lchemes@iib.unsam.edu.ar.
Seth M RubinDepartment of Chemistry and Biochemistry, University of California, Santa Cruz, CA 95064, USA. Electronic address: srubin@ucsc.edu.
University of California, Santa Cruz · USConsejo Nacional de Investigaciones Científicas y Técnicas · AREuropean Molecular Biology Laboratory · DEEuropean Molecular Biology Laboratory · DE

Funding

UNIV OF CAL, SANTA CRUZ, MARC HONORS UNDERGRADUATE PROT34GM007910 · NIGMS · UNIVERSITY OF CALIFORNIA SANTA CRUZ · PI ZAHLER, ALAN M · 1985 to 2020
$7.6M
Structural Mechanisms Controlling Cell-Cycle Gene ExpressionR01GM124148 · NIGMS · UNIVERSITY OF CALIFORNIA SANTA CRUZ · PI RUBIN, SETH MICHAEL · 2018 to 2021
$1.5M
Structural mechanisms of FoxM1 regulationR01GM127707 · NIGMS · UNIVERSITY OF CALIFORNIA SANTA CRUZ · PI RUBIN, SETH MICHAEL · 2019 to 2022
$1.2M
NIGMS NIH HHS R01 GM124148NIGMS NIH HHS R01 GM127707NIGMS NIH HHS T34 GM007910
6 · The paper itself

Abstract

The retinoblastoma protein (Rb) and its homologs p107 and p130 are critical regulators of gene expression during the cell cycle and are commonly inactivated in cancer. Rb proteins use their "pocket domain" to bind an LxCxE sequence motif in other proteins, many of which function with Rb proteins to co-regulate transcription. Here, we present binding data and crystal structures of the p107 pocket domain in complex with LxCxE peptides from the transcriptional co-repressor proteins HDAC1, ARID4A, and EID1. Our results explain why Rb and p107 have weaker affinity for cellular LxCxE proteins compared with the E7 protein from human papillomavirus, which has been used as the primary model for understanding LxCxE motif interactions. Our structural and mutagenesis data also identify and explain differences in Rb and p107 affinities for some LxCxE-containing sequences. Our study provides new insights into how Rb proteins bind their cell partners with varying affinity and specificity.

Indexed as

Repressor ProteinsRetinoblastoma ProteinCell CycleHumansRetinoblastoma-Like Protein p130Repressor ProteinsRetinoblastoma-Like Protein p130Retinoblastoma Proteincell-cycle controlgene regulationp107 proteinprotein-protein interactionsRb proteinshort linear motiftumor suppressorviral oncogene

Identifiers

PMID35716663
PMCPMC9444907
OpenAlexW4283033154

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.