Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Experiment Video

Updated: May 8, 2026

Simultaneous Measurement of HDAC1 and HDAC6 Activity in HeLa Cells Using UHPLC-MS
09:20

Simultaneous Measurement of HDAC1 and HDAC6 Activity in HeLa Cells Using UHPLC-MS

Published on: August 10, 2017

Systematic identification of Class I HDAC substrates.

Tingting Li, Boyan Song, Zheng Wu

    Briefings in Bioinformatics
    |August 27, 2013
    PubMed
    Summary
    This summary is machine-generated.

    Related Concept Videos

    You might also read

    Related Articles

    Articles linked to this work by shared authors, journal, and citation graph.

    Sort by
    Same author

    Structure-aware parametric representations for time-resolved light transport.

    Optics letters·2022
    Same author

    Benchmark Examination of Blood Amino Acids Patterns in Phenylketonuria Neonates and Young Children on Phenylalanine-Restricted Dietary Treatment.

    Fetal and pediatric pathology·2020
    Same author

    UNG2 deacetylation confers cancer cell resistance to hydrogen peroxide-induced cytotoxicity.

    Free radical biology & medicine·2020
    Same author

    Characterizing the fluid dynamics in the flow fields of cylindrical orbitally shaken bioreactors with different geometry sizes.

    Engineering in life sciences·2020
    Same author

    Clinical, biochemical and molecular spectrum of mild 6-pyruvoyl-tetrahydropterin synthase deficiency and a case report.

    Fetal and pediatric pathology·2020
    Same author

    Analyzing the suitability of a baffled orbitally shaken bioreactor for cells cultivation using the computational fluid dynamics approach.

    Biotechnology progress·2018

    This study introduces a novel method to identify protein deacetylation sites targeted by Class I histone deacetylases (HDACs). The developed approach effectively predicts substrates, aiding in understanding gene regulation and biological processes.

    Area of Science:

    • Biochemistry
    • Molecular Biology
    • Proteomics

    Background:

    • Lysine acetylation is a crucial post-translational modification regulating gene transcription and cellular functions.
    • Existing computational tools predict acetylation sites but fail to identify responsible deacetylases.
    • Class I histone deacetylases (HDACs) play significant roles in deacetylation, yet their specific substrates remain largely uncharacterized.

    Purpose of the Study:

    • To develop a computational method for identifying protein deacetylation sites targeted by Class I HDACs.
    • To analyze sequence features distinguishing deacetylation sites.
    • To provide a tool for predicting Class I HDAC substrates.

    Main Methods:

    • Manual curation of Class I HDAC substrates.
    Keywords:
    Class I HDACsdeacetylationpredictionsequence featurespecificity

    More Related Videos

    Assays for Validating Histone Acetyltransferase Inhibitors
    09:11

    Assays for Validating Histone Acetyltransferase Inhibitors

    Published on: August 6, 2020

    Examination of Proteins Bound to Nascent DNA in Mammalian Cells Using BrdU-ChIP-Slot-Western Technique
    09:14

    Examination of Proteins Bound to Nascent DNA in Mammalian Cells Using BrdU-ChIP-Slot-Western Technique

    Published on: January 14, 2016

    Related Experiment Videos

    Last Updated: May 8, 2026

    Simultaneous Measurement of HDAC1 and HDAC6 Activity in HeLa Cells Using UHPLC-MS
    09:20

    Simultaneous Measurement of HDAC1 and HDAC6 Activity in HeLa Cells Using UHPLC-MS

    Published on: August 10, 2017

    Assays for Validating Histone Acetyltransferase Inhibitors
    09:11

    Assays for Validating Histone Acetyltransferase Inhibitors

    Published on: August 6, 2020

    Examination of Proteins Bound to Nascent DNA in Mammalian Cells Using BrdU-ChIP-Slot-Western Technique
    09:14

    Examination of Proteins Bound to Nascent DNA in Mammalian Cells Using BrdU-ChIP-Slot-Western Technique

    Published on: January 14, 2016

  • Analysis of sequence characteristics surrounding deacetylation sites.
  • Development and validation of a predictive model using P-value distribution and leave-one-out testing.
  • Experimental validation through overexpression of Class I HDACs and detection of substrate acetylation levels.

    • Main Results:

    • Class I HDACs (HDAC1, HDAC2, HDAC3) exhibit conserved sequence features around their deacetylation sites.
    • A predictive method was established based on these sequence features.
    • Experimental validation confirmed that 5 out of 7 predicted proteins are indeed deacetylated by Class I HDACs.
    • The developed method demonstrates high efficiency in predicting protein deacetylation sites.

    Conclusions:

    • The proposed method effectively identifies protein deacetylation sites for Class I HDACs.
    • This work advances the understanding of HDAC-mediated regulation of protein acetylation.
    • The findings contribute to the field of epigenetics and post-translational modifications, with potential applications in disease research.
    • The predictive tool is available on the ASEB website for public use.