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 * Home
 * Research
 * People
 * Publications
 * Structures
 * Opportunities


 * Home
 * Research
 * People
 * Publications
 * Structures
 * Opportunities



LEARN MORE LEARN MORE THE BERGER
GROUP



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THE BERGER GROUP

Welcome to the laboratory of James M. Berger, located in the Department of
Biophysics and Biophysical Chemistry. My laboratory’s research is focused on
understanding how multi-subunit assemblies use ATP for overcoming topological
challenges within the chromosome and controlling the flow of genetic
information.  We are particularly interested in developing mechanistic models
that explain how macromolecular machines transduce chemical energy into force
and motion, and in determining how cells exploit these complexes and their
activities for regulating the initiation of DNA replication, chromosome
superstructure, and other essential nucleic acid transactions.  Our principal
approaches rely on a variety of structural, biochemical, and biophysical methods
to define the architecture, function, evolution, and regulation of biological
complexes. We also have extensive interests in mechanistic enzymology and the
study of small-molecule inhibitors of therapeutic potential, the development of
chemical approaches to trapping weak protein/protein and protein/nucleic acid
interactions, and in using microfluidics for biochemical investigations of
protein dynamics and structure.




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OUR RESEARCH

APPLIED AND TRANSLATIONAL RESEARCH




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MOLECULAR CONTROL OF DNA SUPERSTRUCTURE




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REPLICATION INITIATION MECHANISMS




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RING ATPASE ASSEMBLY AND MECHANISM




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SELECTED RECENT PUBLICATIONS

Liu C, Hauk G, Yan Q, Berger JM. Structure of Escherichia coli exonuclease VII.
Proc Natl Acad Sci U S A. 2024 Jan 30;121(5):e2319644121.

Bandak AF, Blower TR, Nitiss KC, Gupta R, Lau AY, Guha R, Nitiss JL, Berger JM.
Naturally mutagenic sequence diversity in a human type II topoisomerase. Proc
Natl Acad Sci U S A. 2023 Jul 11;120(28):e2302064120

Jeong J, Lee JH, Carcamo CC, Parker MW, Berger JM. DNA-Stimulated Liquid-Liquid
phase separation by eukaryotic topoisomerase II modulates catalytic function.
Elife. 2022 Nov 7;11:e81786

Lee JH, Mosher EP, Lee YS, Bumpus NN, Berger JM. Control of topoisomerase
II activity and chemotherapeutic inhibition by TCA cycle metabolites. Cell
Chem Biol. 2021 Sep 11:S2451-9456(21)00403-7.

Puri N, Fernandez AJ, O’Shea Murray VL, McMillan S, Keck JL, Berger JM.
The molecular coupling between substrate recognition and ATP turnover in a
AAA+ hexameric helicase loader. Elife. 2021 May 26;10:e64232

Attali I, Botchan MR, Berger JM. Structural Mechanisms for Replicating DNA
in Eukaryotes. Annu Rev Biochem. 2021 Jun 20;90:77-106.

Modulated control of DNA supercoiling balance by the DNA-wrapping domain of
bacterial gyrase.
Hobson MJ, Bryant Z, Berger JM.  Nucleic Acids Res. 2020 Feb 28;48(4):2035-2049.

Physical Basis for the Loading of a Bacterial Replicative Helicase onto DNA.
 Arias-Palomo E, Puri N, O’Shea Murray VL, Yan Q, Berger JM.  Mol Cell. 2019
Apr 4;74(1):173-184.

A new class of disordered elements controls DNA replication through initiator
self-assembly.
Parker MW, Bell M, Mir M, Kao JA, Darzacq X, Botchan MR, Berger JM.  Elife. 2019
Sep 27;8. pii: e48562.


View All Publications (on NCBI site)





 * 

 * Johns Hopkins University
   School of Medicine
   Biophysics and Biophysical Chemistry
   725 N. Wolfe Street, WBSB 614
   Baltimore, MD 21205-2185
   410.955.0728


 * COMMUNITY
   
   Community We are part of the Dept. of Biophysics and Biophysical Chemistry
   Dept. at JHMI, as well as of the the Johns Hopkins Graduate Program in
   Molecular Biophysics (PMB), the Biochemistry, Cellular and Molecular Biology
   Graduate Program (BCMB), and the Chemistry-Biology Interface Graduate Program
   (CBI):
   Dept. of Biophysics
   PMB BCMB
   CBI
   The Sidney Kimmel Comprehensive Cancer Center


 * OPPORTUNITIES
   
   Information for those interested in our research:
   Please contact the PI directly for inquiries regarding research opportunities
   for undergraduates, graduate students, medical students and postdoctoral
   fellows.


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