Post-translational modification of histone proteins regulates all processes requiring access to DNA. Attachment of the small protein, ubiquitin, to histone H2B is a universal feature of actively transcribed genes and has been proposed to play a role in dynamic changes in chromatin structure. However, a mechanistic understanding of how enzymes regulate this modification, and how attachment and removal of ubiquitin may be coupled to nucleosome dynamics, is lacking. Among many barriers to elucidating how H2B ubiquitination regulates transcription has been the lack of molecular insights into the way that enzymes that regulate this modification engage their nucleosome substrates. Levels of H2B ubiquitination in yeast are regulated by two deubiquitinating enzymes: the four-protein SAGA DUB module, which is part of the 1.9 MDa SAGA transcriptional coactivator complex, and Ubp10, a monomeric enzyme. Although both the DUB module and Ubp10 ostensibly target the same substrate for ubiquitination, deletion of either enyzme has a distinct effect in vivo, suggesting that these enzyme are either targeted to different genomic locations or interact differently with chromatin. In the past funding period, we succeeded in crystallizing the SAGA DUB module - Ubp8/Sgf11/Sus1/Sgf73 - bound to ubiquitinated nucleosomes. We will build upon this accomplishment to address how H2B ubiquitination is regulated and how H2B deubiquitination is coupled to nucleosome dynamics.
In Aim 1, we will address how the SAGA DUB module recognizes ubiquitinated nucleosomes by determining the atomic resolution structure of Ubp8/Sgf11/Sus1/Sgf73 bound to ubiquitinated nucleosomes. These results will also provide a foundation for probing how cross-talk with phosphorylation of histone H2A-Y58 regulates DUB module activity in yeast and human cells.
In Aim 2, we will determine the mechanism by which Ubp10 specifically engages chromatin and how differences between SAGA DUB module and Ubp10 binding to H2B might underlie their distinct biological functions.
In Aim 3, we will explore the role that histone chaperones play in governing the specificity of both Ubp10 and the DUB module for their histone substrates.

Public Health Relevance

Many tumors are characterized by low levels of histone H2B ubiquitination, while high levels of the enzyme that removes this modification, USP22, is part of a 'death by cancer' gene signature found in tumors that are resistant to currently available chemotherapeutic agents. Our studies will provide molecular insights into how enzymes like USP22 regulate H2B ubiquitination, which will aid efforts to identify new drugs that may constitute promising new cancer therapies.

National Institute of Health (NIH)
National Institute of General Medical Sciences (NIGMS)
Research Project (R01)
Project #
Application #
Study Section
Molecular Genetics B Study Section (MGB)
Program Officer
Carter, Anthony D
Project Start
Project End
Budget Start
Budget End
Support Year
Fiscal Year
Total Cost
Indirect Cost
Johns Hopkins University
Schools of Medicine
United States
Zip Code
Bhat, Shridhar; Hwang, Yousang; Gibson, Matthew D et al. (2018) Hydrazide Mimics for Protein Lysine Acylation To Assess Nucleosome Dynamics and Deubiquitinase Action. J Am Chem Soc 140:9478-9485
Jbara, Muhammad; Laps, Shay; Morgan, Michael et al. (2018) Palladium prompted on-demand cysteine chemistry for the synthesis of challenging and uniquely modified proteins. Nat Commun 9:3154
Morrow, Marie E; Morgan, Michael T; Clerici, Marcello et al. (2018) Active site alanine mutations convert deubiquitinases into high-affinity ubiquitin-binding proteins. EMBO Rep 19:
Morgan, Michael T; Wolberger, Cynthia (2017) Recognition of ubiquitinated nucleosomes. Curr Opin Struct Biol 42:75-82
Morgan, Michael T; Haj-Yahya, Mahmood; Ringel, Alison E et al. (2016) Structural basis for histone H2B deubiquitination by the SAGA DUB module. Science 351:725-8
Jbara, Muhammad; Maity, Suman Kumar; Morgan, Michael et al. (2016) Chemical Synthesis of Phosphorylated Histone H2A at Tyr57 Reveals Insight into the Inhibition Mode of the SAGA Deubiquitinating Module. Angew Chem Int Ed Engl 55:4972-6
Ringel, Alison E; Wolberger, Cynthia (2016) Structural basis for acyl-group discrimination by human Gcn5L2. Acta Crystallogr D Struct Biol 72:841-8
Kumar, Pankaj; Magala, Pearl; Geiger-Schuller, Kathryn R et al. (2015) Role of a non-canonical surface of Rad6 in ubiquitin conjugating activity. Nucleic Acids Res 43:9039-50
Kumar, Pankaj; Wolberger, Cynthia (2015) Structure of the yeast Bre1 RING domain. Proteins 83:1185-90
Ringel, Alison E; Cieniewicz, Anne M; Taverna, Sean D et al. (2015) Nucleosome competition reveals processive acetylation by the SAGA HAT module. Proc Natl Acad Sci U S A 112:E5461-70

Showing the most recent 10 out of 20 publications