J. Berger

发表

Structure of a topoisomerase II-DNA-nucleotide complex reveals a new control mechanism for ATPase activity

B. Schmidt, N. Osheroff, J. Berger, 2012, Nature Structural &Molecular Biology.

Structural basis for ATP-dependent DnaA assembly and replication-origin remodeling

J. Berger, J. P. Erzberger, M. Mott, 2006, Nature Structural &Molecular Biology.

A robust and scalable microfluidic metering method that allows protein crystal growth by free interface diffusion

S. Quake, J. Berger, C. Hansen, 2002, Proceedings of the National Academy of Sciences of the United States of America.

DNA binding polarity, dimerization, and ATPase ring remodeling in the CMG helicase of the eukaryotic replisome

M. Botchan, J. Berger, Alessandro Costa, 2014, eLife.

Ligand-induced and small molecule control of substrate loading in a hexameric helicase

Kevin N Dyer, J. Berger, M. R. Lawson, 2016, bioRxiv.

Ligand-induced and small-molecule control of substrate loading in a hexameric helicase

Kevin N Dyer, J. Berger, M. R. Lawson, 2016, Proceedings of the National Academy of Sciences.

The Bacterial DnaC Helicase Loader Is a DnaB Ring Breaker

J. Berger, E. Arias-Palomo, V. O'shea, 2013, Cell.

Core Structure of gp41 from the HIV Envelope Glycoprotein

Deborah Fass, James M. Berger, P. S. Kim, 1997, Cell.

Replication Origin Recognition and Deformation by a Heterodimeric Archaeal Orc1 Complex

J. Berger, S. Bell, J. Corn, 2007, Science.

Molecular determinants of origin discrimination by Orc1 initiators in archaea

Jacob E. Corn, James M. Berger, Alessandro Costa, 2011, Nucleic acids research.

Mechanisms and regulation of DNA replication initiation in eukaryotes

M. Botchan, J. Berger, M. W. Parker, 2017, Critical reviews in biochemistry and molecular biology.

A new class of disordered elements controls DNA replication through initiator self-assembly

M. Botchan, J. Berger, X. Darzacq, 2019, eLife.

Conformational control and DNA-binding mechanism of the metazoan origin recognition complex

R. Aebersold, M. Botchan, J. Berger, 2018, Proceedings of the National Academy of Sciences.

Crystal Structure of the Eukaryotic Origin Recognition Complex

James M. Berger, M. Botchan, J. Berger, 2015, Nature.

ATP-dependent conformational dynamics underlie the functional asymmetry of the replicative helicase from a minimalist eukaryote

M. Botchan, J. Berger, Alessandro Costa, 2012, Proceedings of the National Academy of Sciences.

Structural and biochemical characterization of the interaction between KPC-2 beta-lactamase and beta-lactamase inhibitor protein.

Melinda S. Hanes, J. Berger, R. Bonomo, 2009, Biochemistry.

Computational redesign of the SHV-1 beta-lactamase/beta-lactamase inhibitor protein interface.

Robert A Bonomo, Kimberly A. Reynolds, Tracy M Handel, 2008, Journal of molecular biology.

Structural and Computational Characterization of the SHV-1 β-Lactamase-β-Lactamase Inhibitor Protein Interface*

Jack F. Kirsch, Kimberly A. Reynolds, James M. Berger, 2006, Journal of Biological Chemistry.

Capture and X-ray diffraction studies of protein microcrystals in a microfluidic trap array

Nicholas K. Sauter, Aaron S. Brewster, Ismail Emre Araci, 2015, Acta crystallographica. Section D, Biological crystallography.

A microfluidic device for kinetic optimization of protein crystallization and in situ structure determination.

Stephen R Quake, Carl L Hansen, S. Quake, 2006, Journal of the American Chemical Society.

Crystal structure of the N-terminal domain of the DnaB hexameric helicase.

J M Berger, J. Berger, D. Fass, 1999, Structure.

Structure of the Rho Transcription Terminator Mechanism of mRNA Recognition and Helicase Loading

J. Berger, E. Skordalakes, 2003, Cell.

Minor groove RNA triplex in the crystal structure of a ribosomal frameshifting viral pseudoknot

J. Berger, A. Rich, M. Egli, 1999, Nature Structural Biology.

Running in Reverse: The Structural Basis for Translocation Polarity in Hexameric Helicases

J. Berger, N. D. Thomsen, 2009, Cell.

The structural basis for substrate specificity in DNA topoisomerase IV.

J. Berger, K. Corbett, N. D. Thomsen, 2005, Journal of molecular biology.

Suite of three protein crystallography beamlines with single superconducting bend magnet as the source.

Tom Alber, David A Agard, Nicholas Kelez, 2004, Journal of synchrotron radiation.

The C-terminal domain of DNA gyrase A adopts a DNA-bending beta-pinwheel fold.

J. Berger, R. K. Shultzaberger, K. Corbett, 2004, Proceedings of the National Academy of Sciences of the United States of America.

The C-terminal domain of DNA gyrase A adopts a DNA-bending β-pinwheel fold

James M. Berger, Kevin D. Corbett, J. Berger, 2004 .

Divalent metal cofactor binding in the kinetic folding trajectory of Escherichia coli ribonuclease HI

J M Berger, J. Berger, S. Marqusee, 2000, Protein science : a publication of the Protein Society.

DNA replication initiation: mechanisms and regulation in bacteria

James M. Berger, J. Berger, M. Mott, 2007, Nature Reviews Microbiology.

The structure of bacterial DnaA: implications for general mechanisms underlying DNA replication initiation

J. Berger, J. P. Erzberger, Michelle M Pirruccello, 2002, The EMBO journal.

A high-transparency, micro-patternable chip for X-ray diffraction analysis of microcrystals under native growth conditions

J. Berger, A. Brunger, C. Ogata, 2015, Acta crystallographica. Section D, Biological crystallography.

Escherichia coli condensin MukB stimulates topoisomerase IV activity by a direct physical interaction

B. Chait, J. Berger, Yinyin Li, 2010, Proceedings of the National Academy of Sciences.

Topoisomerase VI senses and exploits both DNA crossings and bends to facilitate strand passage

J. Berger, T. Wendorff, 2018, eLife.

An Atypical AAA+ ATPase Assembly Controls Efficient Transposition through DNA Remodeling and Transposase Recruitment

J. Berger, E. Arias-Palomo, 2015, Cell.

Molecular Basis for ATP-Hydrolysis-Driven DNA Translocation by the CMG Helicase of the Eukaryotic Replisome

M. Botchan, J. Berger, Alessandro Costa, 2019, Cell reports.

A naturally chimeric type IIA topoisomerase in Aquifex aeolicus highlights an evolutionary path for the emergence of functional paralogs

J. Berger, E. Tretter, J. C. Lerman, 2010, Proceedings of the National Academy of Sciences.

Mechanism of Action of Mycobacterium tuberculosis Gyrase Inhibitors: A Novel Class of Gyrase Poisons.

N. Osheroff, J. Berger, B. Bax, 2018, ACS infectious diseases.

Mechanisms for Defining Supercoiling Set Point of DNA Gyrase Orthologs

J. Berger, E. Tretter, 2012, The Journal of Biological Chemistry.

Nanoscale protein assemblies from a circular permutant of the tobacco mosaic virus.

J. Berger, K. Duderstadt, M. Francis, 2010, Nano letters.

Macro-to-Micro Structural Proteomics: Native Source Proteins for High-Throughput Crystallization

A. May, J. Berger, C. Gee, 2012, PloS one.

Convergent evolution in two bacterial replicative helicase loaders.

J. Berger, D. Jeruzalmi, Jillian Chase, 2022, Trends in biochemical sciences.

Molecular mechanisms of substrate-controlled ring dynamics and sub-stepping in a nucleic-acid dependent hexameric motor

J. Berger, L. Witkowsky, M. R. Lawson, 2016, bioRxiv.

THAP proteins target specific DNA sites through bipartite recognition of adjacent major and minor grooves

J. Berger, D. Rio, J. Corn, 2009, Nature Structural &Molecular Biology.

The protective antigen component of anthrax toxin forms functional octameric complexes.

J. Berger, E. Williams, B. Krantz, 2009, Journal of molecular biology.

Dynamic coupling between conformations and nucleotide states in DNA gyrase

J. Berger, Aakash Basu, Z. Bryant, 2018, Nature Chemical Biology.

Toward computational design of protein crystals with improved resolution

Jeffrey J. Gray, J. Jeliazkov, J. Berger, 2019, bioRxiv.

Neurexin mediates the assembly of presynaptic terminals

E. Isacoff, J. Berger, P. Scheiffele, 2003, Nature Neuroscience.

A conserved mechanism of DEAD-box ATPase activation by nucleoporins and IP6 in mRNA export

J. Berger, M. Seeliger, K. Weis, 2011, Nature.

FASTDXL: a generalized screen to trap disulfide-stabilized complexes for use in structural studies.

J. Berger, J. Corn, 2007, Structure.

Ancient Origin of cGAS-STING Reveals Mechanism of Universal 2',3' cGAMP Signaling.

J. Berger, J. Doudna, P. J. Kranzusch, 2015, Molecular cell.

Ancient Origin of cGAS-ST ING Reveals Mechanism of Universal 2 0 , 3 0 cGAMP Signaling Graphical Abstract Highlights

J. Berger, J. Doudna, P. J. Kranzusch, 2015 .

DNA-Stimulated Liquid-Liquid phase separation by eukaryotic topoisomerase ii modulates catalytic function

J. Berger, Joyce H. Lee, M. Parker, 2022, bioRxiv.

High throughput crystallography of TB drug targets.

D. Eisenberg, J. Berger, M. James, 2007, Infectious disorders drug targets.

Lethal synergy involving bicyclomycin: an approach for reviving old antibiotics.

J. Berger, Liping Li, Xilin Zhao, 2014, The Journal of antimicrobial chemotherapy.

Identification of Residues in Yeast Spo11p Critical for Meiotic DNA Double-Strand Break Formation

S. Keeney, J. Berger, R. Diaz, 2002, Molecular and Cellular Biology.

Structural and Biochemical Characterization of the Interaction between KPC-2 β -Lactamase and β -Lactamase Inhibitor Protein,

Melinda S. Hanes, J. Berger, R. Bonomo, 2009 .

SnapShot: Nucleic Acid Helicases and Translocases

J. Berger, 2008, Cell.

Antitumor bisdioxopiperazines inhibit yeast DNA topoisomerase II by trapping the enzyme in the form of a closed protein clamp.

J. Wang, J. Berger, T. Andoh, 1994, Proceedings of the National Academy of Sciences of the United States of America.

DNA replication: making two forks from one prereplication complex.

M. Botchan, J. Berger, 2010, Molecular cell.

Structure and mechanism of DNA topoisomerase II

J. Berger, S. Harrison, S. Gamblin, 1996, Nature.

Evybactin is a DNA gyrase inhibitor that selectively kills Mycobacterium tuberculosis

J. Berger, D. Baldisseri, K. Lewis, 2022, Nature Chemical Biology.

Synthesis and antimicrobial evaluation of new nitric oxide‐donating fluoroquinolone/oxime hybrids

J. Berger, D. Sriram, S. Abbas, 2020, Archiv der Pharmazie.

Control of topoisomerase II activity and chemotherapeutic inhibition by TCA cycle metabolites

J. Berger, Namandjé N. Bumpus, Joyce H. Lee, 2021, bioRxiv.

The structure of DNA-bound human topoisomerase II alpha: conformational mechanisms for coordinating inter-subunit interactions with DNA cleavage.

B. Schmidt, J. Berger, P. Heslop, 2012, Journal of molecular biology.

Synthesis, molecular docking, antimicrobial evaluation, and DNA cleavage assay of new thiadiazole/oxadiazole ciprofloxacin derivatives

J. Berger, S. Mitarai, S. Abbas, 2019, Monatshefte für Chemie - Chemical Monthly.

Crystal structure and stability of gyrase–fluoroquinolone cleaved complexes from Mycobacterium tuberculosis

J. Berger, T. R. Blower, R. Kerns, 2016, Proceedings of the National Academy of Sciences.

Design, synthesis and molecular docking of new N-4-piperazinyl ciprofloxacin-triazole hybrids with potential antimicrobial activity.

J. Berger, S. Mitarai, S. Abbas, 2019, Bioorganic chemistry.

Afif F. Bandak, G. Bifulco, J. Berger, 2019, Journal of natural products.

Computational learning reveals coiled coil-like motifs in histidine kinase linker domains

M Singh, B Berger, P S Kim, 1998, Proc. Natl. Acad. Sci. USA.

Fluoroquinolone interactions with Mycobacterium tuberculosis gyrase: Enhancing drug activity against wild-type and resistant gyrase

N. Osheroff, J. Berger, T. R. Blower, 2016, Proceedings of the National Academy of Sciences.

Structural basis for gate-DNA recognition and bending by type IIA topoisomerases

J. Berger, K. Dong, 2007, Nature.

How do type II topoisomerases use ATP hydrolysis to simplify DNA topology beyond equilibrium? Investigating the relaxation reaction of nonsupercoiling type II topoisomerases.

J. Berger, K. Corbett, A. Maxwell, 2009, Journal of molecular biology.

The role of ATP-dependent machines in regulating genome topology.

J. Berger, G. Hauk, 2016, Current opinion in structural biology.

New fluoroquinolones/nitric oxide donor hybrids: design, synthesis and antitubercular activity

J. Berger, D. Sriram, S. Abbas, 2019, Medicinal Chemistry Research.

Structure of a murine leukemia virus receptor-binding glycoprotein at 2.0 angstrom resolution.

P. S. Kim, J. Berger, J. Cunningham, 1997, Science.

Bypassing Fluoroquinolone Resistance with Quinazolinediones: Studies of Drug–Gyrase–DNA Complexes Having Implications for Drug Design

J. Berger, K. Drlica, R. Kerns, 2014, ACS chemical biology.

Structural mechanism of inhibition of the Rho transcription termination factor by the antibiotic bicyclomycin.

J. Berger, E. Skordalakes, H. Kohn, 2005, Structure.

DNA topoisomerases: harnessing and constraining energy to govern chromosome topology

J. Berger, A. Schoeffler, 2008, Quarterly Reviews of Biophysics.

Quaternary changes in topoisomerase II may direct orthogonal movement of two DNA strands

Deborah Fass, James M. Berger, J. Berger, 1999, Nature Structural Biology.

Structure of DNA topoisomerases.

J. Berger, 1998, Biochimica et biophysica acta.

Recent developments in DNA topoisomerase II structure and mechanism.

J. Wang, J. Berger, James M. Berger, 1996, Current opinion in structural biology.

Formation of MacroH2A-containing senescence-associated heterochromatin foci and senescence driven by ASF1a and HIRA.

Adrian A Canutescu, Roland L Dunbrack, Roland L. Dunbrack, 2005, Developmental cell.

Structure of human cGAS reveals a conserved family of second-messenger enzymes in innate immunity.

J. Berger, J. Doudna, P. J. Kranzusch, 2013, Cell reports.

Structure of the topoisomerase VI‐B subunit: implications for type II topoisomerase mechanism and evolution

J. Berger, K. Corbett, 2003, The EMBO journal.

A complex suite of loci and elements in eukaryotic type II topoisomerases determine selective sensitivity to distinct poisoning agents

Afif F. Bandak, J. Berger, A. S. Lee, 2019, Nucleic acids research.

All tangled up: how cells direct, manage and exploit topoisomerase function

B. Schmidt, J. Berger, S. Vos, 2011, Nature Reviews Molecular Cell Biology.

Structure and Function of the Conserved Core of Histone Deposition Protein Asf1

J. Berger, E. Skordalakes, Rugang Zhang, 2003, Current Biology.

Interdomain Communication of the Chd1 Chromatin Remodeler across the DNA Gyres of the Nucleosome.

James M. Berger, J. Berger, Ashok Patel, 2017, Molecular cell.

Trapped topoisomerase II initiates formation of de novo duplications via the nonhomologous end-joining pathway in yeast

J. Berger, Yilun Sun, S. Jinks-Robertson, 2020, Proceedings of the National Academy of Sciences.

Loading strategies of ring-shaped nucleic acid translocases and helicases.

J. Berger, V. O'shea, Valerie L O'shea, 2014, Current opinion in structural biology.

AAA+ ATPases in the Initiation of DNA Replication

J. Berger, K. Duderstadt, 2008, Critical reviews in biochemistry and molecular biology.

Biochemical characterization of Cdc6/Orc1 binding to the replication origin of the euryarchaeon Methanothermobacter thermoautotrophicus.

J. Berger, S. Capaldi, 2004, Nucleic acids research.

Evolutionary relationships and structural mechanisms of AAA+ proteins.

J. Berger, J. Erzberger, 2006, Annual review of biophysics and biomolecular structure.

Structure of the yeast histone H3-ASF1 interaction: implications for chaperone mechanism, species-specific interactions, and epigenetics

J. Berger, P. Kaufman, A. J. Antczak, 2006, BMC Structural Biology.

Histone chaperone Asf1 is required for histone H3 lysine 56 acetylation, a modification associated with S phase in mitosis and meiosis.

B. Garcia, A. Burlingame, Xin Zhang, 2006, Proceedings of the National Academy of Sciences of the United States of America.

Structural and functional characterization of the Spo11 core complex

Eleni P. Mimitou, S. Keeney, J. Berger, 2021, Nature Structural & Molecular Biology.

Structural and functional characterization of the Spo11 core complex

Eleni P. Mimitou, S. Keeney, J. Berger, 2020, bioRxiv.

Regulation of bacterial priming and daughter strand synthesis through helicase-primase interactions

J. Berger, J. Corn, 2006, Nucleic acids research.

The Polar T1 Interface Is Linked to Conformational Changes that Open the Voltage-Gated Potassium Channel

Y. Jan, L. Jan, J. Berger, 2000, Cell.

Structure of M11L: A myxoma virus structural homolog of the apoptosis inhibitor, Bcl‐2

J. Berger, G. McFadden, T. Handel, 2007, Protein science : a publication of the Protein Society.

Structure, molecular mechanisms, and evolutionary relationships in DNA topoisomerases.

J. Berger, K. Corbett, James M Berger, 2004, Annual review of biophysics and biomolecular structure.

Control of topoisomerase II activity and chemotherapeutic inhibition by TCA cycle metabolites.

J. Berger, Namandjé N. Bumpus, Joyce H. Lee, 2021, Cell chemical biology.

Structural frameworks for considering microbial protein‐ and nucleic acid‐dependent motor ATPases

J. Berger, N. D. Thomsen, 2008, Molecular microbiology.

Structure of the nuclease domain of ribonuclease III from M. tuberculosis at 2.1 Å

J. Berger, D. Akey, 2005, Protein science : a publication of the Protein Society.

Synergistic Coordination of Chromatin Torsional Mechanics and Topoisomerase Activity

Michelle D. Wang, R. Badman, J. Berger, 2019, Cell.

The X-ray structure of the papillomavirus helicase in complex with its molecular matchmaker E2.

M. Botchan, J. Berger, E. Abbate, 2004, Genes & development.

Molecular basis for G protein control of the prokaryotic ATP sulfurylase.

J. Berger, C. Bertozzi, D. Vocadlo, 2006, Molecular cell.

A Primase-Induced Conformational Switch Controls the Stability of the Bacterial Replisome

Antoine M. van Oijen, J. Berger, S. Jergic, 2018, bioRxiv.

A Meier-Gorlin syndrome mutation in a conserved C-terminal helix of Orc6 impedes origin recognition complex formation

M. Botchan, E. Nogales, J. Berger, 2013, eLife.

The structural basis for terminator recognition by the Rho transcription termination factor.

J M Berger, N. Bergman, J. Berger, 1999, Molecular cell.

Hyperthermophilic Aquifex aeolicus initiates primer synthesis on a limited set of trinucleotides comprised of cytosines and guanines

J. Berger, K. Sayood, S. Hinrichs, 2008, Nucleic acids research.

Binding mechanism of metal⋅NTP substrates and stringent-response alarmones to bacterial DnaG-type primases.

J. Berger, Clement S. Chu, J. Corn, 2012, Structure.

Nucleotide-bound structures of the DnaG catalytic core reveal how metal•NTP substrates are bound during primer synthesis and blocked by stringent response alarmones

J. Berger, Clement S. Chu, J. Keck, 2012 .

Activation of the DExD/H-box protein Dbp5 by the nuclear-pore protein Gle1 and its coactivator InsP6 is required for mRNA export

J. Berger, J. Thorner, K. Weis, 2006, Nature Cell Biology.

Dimensional Reduction for Single-Molecule Imaging of DNA and Nucleosome Condensation by Polyamines, HP1α and Ki-67

J. Berger, T. Ha, N. Hatzakis, 2023, bioRxiv.

Direct control of type IIA topoisomerase activity by a chromosomally encoded regulatory protein

J. Berger, V. Nagaraja, A. Lyubimov, 2014, Genes & development.

Structural basis for the MukB‐topoisomerase IV interaction and its functional implications in vivo

J. Berger, N. Stewart, S. Vos, 2013, The EMBO journal.

Mechanisms for initiating cellular DNA replication.

J. Berger, Alessandro Costa, I. V. Hood, 2013, Annual review of biochemistry.

The structural basis for MCM2–7 helicase activation by GINS and Cdc45

M. Botchan, E. Nogales, J. Berger, 2011, Nature Structural &Molecular Biology.

The ancestral role of ATP hydrolysis in type II topoisomerases: prevention of DNA double-strand breaks

J. Berger, A. Maxwell, A. Bates, 2011, Nucleic acids research.

SURVEY AND SUMMARY The ancestral role of ATP hydrolysis in type II topoisomerases: prevention of DNA double-strand breaks

J. Berger, A. Maxwell, A. Bates, 2011 .

A new class of disordered elements controls DNA replication through initiator self-assembly

M. Botchan, J. Berger, X. Darzacq, 2019, bioRxiv.

The role of DNA bending in type IIA topoisomerase function

J. Berger, K. Dong, Imsang Lee, 2013, Nucleic acids research.

ATP binding controls distinct structural transitions of Escherichia coli DNA gyrase in complex with DNA

J. Berger, Aakash Basu, Z. Bryant, 2012, Nature Structural &Molecular Biology.

DNA replication at high resolution.

J. Berger, J. Keck, 2000, Chemistry & biology.

Unraveling the early steps of prokaryotic replication.

J. Berger, E. Cunningham, 2005, Current opinion in structural biology.

A structural framework for replication origin opening by AAA+ initiation factors.

J. Berger, K. Duderstadt, 2013, Current opinion in structural biology.

Origin Remodeling and Opening in Bacteria Rely on Distinct Assembly States of the DnaA Initiator

J. Berger, M. Mott, N. J. Crisona, 2010, The Journal of Biological Chemistry.

Mechanisms for initiating cellular DNA replication

M. Botchan, J. Berger, F. Bleichert, 2017, Science.

Structural Synergy and Molecular Crosstalk between Bacterial Helicase Loaders and Replication Initiators

J. Berger, M. Mott, M. Coons, 2008, Cell.

Cell Cycle-Dependent Control and Roles of DNA Topoisomerase II

J. Berger, Joyce H. Lee, Joyce H Lee, 2019, Genes.

Structural Mechanisms for Replicating DNA in Eukaryotes.

M. Botchan, J. Berger, Ilan Attali, 2021, Annual review of biochemistry.

Molecular determinants of phase separation for Drosophila DNA replication licensing factors

M. Botchan, J. Berger, M. Parker, 2021, bioRxiv.

1 Molecular determinants of phase separation for Drosophila DNA replication licensing factors 1 2

M. Botchan, J. Berger, M. Parker, 2021 .

Mechanisms of hexameric helicases

J. Berger, Amy J. Fernandez, 2021, Critical reviews in biochemistry and molecular biology.

Physical Basis for the Loading of a Bacterial Replicative Helicase onto DNA.

J. Berger, E. Arias-Palomo, N. Puri, 2019, Molecular cell.

Nucleotide and partner-protein control of bacterial replicative helicase structure and function.

J. Berger, C. Bustamante, E. Arias-Palomo, 2013, Molecular cell.

Two surfaces on the histone chaperone Rtt106 mediate histone binding, replication, and silencing

J. Berger, J. Rine, A. J. Antczak, 2011, Proceedings of the National Academy of Sciences.

Asf1-like structure of the conserved Yaf9 YEATS domain and role in H2A.Z deposition and acetylation

Julia M. Schulze, J. Berger, J. Rine, 2009, Proceedings of the National Academy of Sciences of the United States of America.

The nuts and bolts of ring-translocase structure and mechanism.

J. Berger, M. Strycharska, A. Lyubimov, 2011, Current opinion in structural biology.

Structure of the C-terminus of the mRNA export factor Dbp5 reveals the interaction surface for the ATPase activator Gle1

J. Berger, Z. Dossani, K. Weis, 2009, Proceedings of the National Academy of Sciences.

Structure of the topoisomerase II ATPase region and its mechanism of inhibition by the chemotherapeutic agent ICRF-187

J. Berger, S. Classen, S. Olland, 2003, Proceedings of the National Academy of Sciences of the United States of America.

Cdc45 (cell division cycle protein 45) guards the gate of the Eukaryote Replisome helicase stabilizing leading strand engagement

M. Botchan, J. Berger, Alessandro Costa, 2015, Proceedings of the National Academy of Sciences.

Holoenzyme assembly and ATP-mediated conformational dynamics of topoisomerase VI

J. Berger, K. Corbett, P. Benedetti, 2007, Nature Structural &Molecular Biology.

Structure of the RNA polymerase domain of E. coli primase.

J. Berger, A. S. Lynch, J. Keck, 2000, Science.

Structure and function of Cdc6/Cdc18: implications for origin recognition and checkpoint control.

J M Berger, C L Smith, J. Berger, 2000, Molecular cell.

Type II DNA topoisomerases.

J. Berger, 1998, Current opinion in structural biology.

Viral hijacking of a replicative helicase loader and its implications for helicase loading control and phage replication

J. Berger, I. V. Hood, 2016, eLife.

Primus inter pares (First among equals)

J. Berger, J. Keck, 2001, Nature Structural Biology.

Fluoroquinolone-Gyrase-DNA Complexes

Kevin R. Marks, J. Berger, Xilin Zhao, 2014, The Journal of Biological Chemistry.

Structure and Mechanism of Eukaryotic Type IIA Topoisomerases

N. Osheroff, J. Berger, 2012 .

A domain insertion in Escherichia coli GyrB adopts a novel fold that plays a critical role in gyrase function

A. May, J. Berger, A. Schoeffler, 2010, Nucleic acids research.

Mechanisms for Defining Supercoiling Set Point of DNA Gyrase Orthologs

J. Berger, Elsa M Tretter, James M Berger, 2012, The Journal of Biological Chemistry.

Resveratrol: A novel type of topoisomerase II inhibitor

J. Berger, Joyce H. Lee, T. Wendorff, 2017, The Journal of Biological Chemistry.

On the simultaneous binding of eukaryotic DNA topoisomerase II to a pair of double-stranded DNA helices.

J. Wang, J. Berger, J. Roca, 1993, The Journal of biological chemistry.

Structural Elucidation and Functional Characterization of the Hyaloperonospora arabidopsidis Effector Protein ATR13

J. Berger, D. Wemmer, B. Staskawicz, 2011, PLoS pathogens.

Identification, function and structure of the mycobacterial sulfotransferase that initiates sulfolipid-1 biosynthesis

J. Berger, C. Bertozzi, C. Petzold, 2004, Nature Structural &Molecular Biology.

IOTA: integration optimization, triage and analysis tool for the processing of XFEL diffraction images1

Nicholas K. Sauter, Aaron S. Brewster, Axel T. Brunger, 2016, Journal of applied crystallography.

Structure-Guided Reprogramming of Human cGAS Dinucleotide Linkage Specificity

J. Berger, J. Doudna, P. J. Kranzusch, 2014, Cell.

Micro‐Crystallization of Proteins

Stephen R. Quake, Morten Otto Alexander Sommer, Kyle Self, 2008 .

DNA stretching by bacterial initiators promotes replication origin melting

J. Berger, K. Duderstadt, Kevin Chuang, 2011, Nature.

Recent advances in understanding structure-function relationships in the type II topoisomerase mechanism.

J M Berger, J. Berger, A. Schoeffler, 2005, Biochemical Society transactions.

Molecular mechanisms of substrate-controlled ring dynamics and substepping in a nucleic acid-dependent hexameric motor

J. Berger, L. Witkowsky, N. D. Thomsen, 2016, Proceedings of the National Academy of Sciences.

Crystallization and X-ray structure determination of an RNA-dependent hexameric helicase.

J. Berger, N. D. Thomsen, 2012, Methods in enzymology.

Structural Insights into RNA-Dependent Ring Closure and ATPase Activation by the Rho Termination Factor

J. Berger, E. Skordalakes, 2006, Cell.

Mechanism for the Regulated Control of Bacterial Transcription Termination by a Universal Adaptor Protein.

K. Schulten, J. Berger, Andreas Martin, 2018, Molecular cell.

Crosstalk between primase subunits can act to regulate primer synthesis in trans.

Greg L. Hura, J. Berger, J. Corn, 2005, Molecular cell.

Real-time detection of DNA topological changes with a fluorescently labeled cruciform

J. Berger, K. Jude, Abbey Hartland, 2013, Nucleic acids research.

Crystal Structure and Nonhomologous End-joining Function of the Ligase Component of Mycobacterium DNA Ligase D*

J. Berger, M. Glickman, S. Shuman, 2006, Journal of Biological Chemistry.

Structural basis for topoisomerase VI inhibition by the anti-Hsp90 drug radicicol

J. Berger, K. Corbett, 2006, Nucleic acids research.

DNA transport by a type II topoisomerase: direct evidence for a two-gate mechanism.

J. Wang, J. Berger, S. Harrison, 1996, Proceedings of the National Academy of Sciences of the United States of America.

Tuning the sequence specificity of a transcription terminator

J. Berger, M. Lawson, 2019, Current Genetics.

A novel and unified two-metal mechanism for DNA cleavage by type II and IA topoisomerases

B. Schmidt, N. Osheroff, J. Berger, 2010, Nature.

The crystal structure of the hinge domain of the Escherichia coli structural maintenance of chromosomes protein MukB.

J. Berger, Yinyin Li, A. Schoeffler, 2010, Journal of molecular biology.

The MukF subunit of Escherichia coli condensin: architecture and functional relationship to kleisins

J. Berger, S. Gradia, D. Akey, 2005, The EMBO journal.

Function and Structure of a Prokaryotic Formylglycine-generating Enzyme*S⃞

J. Berger, E. Skordalakes, C. Bertozzi, 2008, Journal of Biological Chemistry.

Emerging roles for plant topoisomerase VI.

J. Berger, K. Corbett, 2003, Chemistry & biology.

Structural dissection of ATP turnover in the prototypical GHL ATPase TopoVI.

J. Berger, K. Corbett, 2005, Structure.

Etoposide promotes DNA loop trapping and barrier formation by topoisomerase II

Michelle D. Wang, J. Berger, James T. Inman, 2023, Nature Chemical Biology.

J. Wang, J. Berger, S. Harrison, 1998, Proceedings of the National Academy of Sciences of the United States of America.

Modulated control of DNA supercoiling balance by the DNA-wrapping domain of bacterial gyrase

J. Berger, Z. Bryant, Matthew J Hobson, 2020, Nucleic acids research.

Recognition of DNA Supercoil Geometry by Mycobacterium tuberculosis Gyrase

N. Osheroff, J. Berger, T. R. Blower, 2017, Biochemistry.

Distinct regions of the Escherichia coli ParC C-terminal domain are required for substrate discrimination by topoisomerase IV.

J. Berger, S. Vos, Imsang Lee, 2013, Journal of molecular biology.

Enzymes that push DNA around

J. Berger, J. Keck, 1999, Nature Structural Biology.

Structure and function of an archaeal topoisomerase VI subunit with homology to the meiotic recombination factor Spo11

J. Berger, J. Keck, K. DeAngelis, 1999, The EMBO journal.

Single-molecule dynamics of DNA gyrase in evolutionarily distant bacteria Mycobacterium tuberculosis and Escherichia coli

Cooper J. Galvin, J. Berger, I. Ivanov, 2023, The Journal of biological chemistry.

The molecular coupling between substrate recognition and ATP turnover in a AAA+ hexameric helicase loader

J. Berger, J. Keck, N. Puri, 2020, bioRxiv.

Nucleotide-dependent conformational changes in the DnaA-like core of the origin recognition complex

M. Botchan, Patricia Grob, E. Nogales, 2006, Nature Structural &Molecular Biology.

Crystal structure of the DNA gyrase GyrA N‐terminal domain from Mycobacterium tuberculosis

J. Berger, A. Schoeffler, E. Tretter, 2010, Proteins.

Protein structure terminates doubt about how transcription stops

J. Berger, Fahad Rashid, 2023, Nature.

Narrowing substrate specificity in a directly evolved enzyme: the A293D mutant of aspartate aminotransferase.

Jack F Kirsch, J. Berger, J. Kirsch, 2004, Biochemistry.

Molecular basis of familial hypercholesterolaemia from structure of LDL receptor module

Deborah Fass, Peter S. Kim, James M. Berger, 1997, Nature.

IS21 family transposase cleaved donor complex traps two right-handed superhelical crossings

J. Berger, E. Arias-Palomo, M. Spínola-Amilibia, 2023, Nature communications.

Contributions of folding cores to the thermostabilities of two ribonucleases H

J. Berger, S. Marqusee, S. Robic, 2002, Protein science : a publication of the Protein Society.

Structure of the ATP‐binding domain of Plasmodium falciparum Hsp90

J. Berger, K. Corbett, 2010, Proteins.

DNA recognition by a σ(54) transcriptional activator from Aquifex aeolicus.

M. Lamers, J. Berger, J. Gralla, 2014, Journal of molecular biology.

The N-terminal domain of Nup159 forms a beta-propeller that functions in mRNA export by tethering the helicase Dbp5 to the nuclear pore.

J. Berger, K. Weis, Christine S. Weirich, 2004, Molecular cell.

Identification of a DNA primase template tracking site redefines the geometry of primer synthesis

J. Berger, J. Pelton, J. Corn, 2008, Nature Structural &Molecular Biology.

AAA+ ATPases in the initiation of DNA replication.

J. Berger, K. Duderstadt, 2008, Critical reviews in biochemistry and molecular biology.

Structural and computational characterization of the SHV-1 beta-lactamase-beta-lactamase inhibitor protein interface.

Kimberly A. Reynolds, J. Berger, R. Bonomo, 2006, The Journal of biological chemistry.

Using energy to go downhill – a genoprotective role for ATPase activity in DNA topoisomerase II

Afif F. Bandak, J. Berger, K. C. Nitiss, 2023, bioRxiv.

Erratum: Structure of the topoisomerase II ATPase region and its mechanism of inhibition by the chemotherapeutic agent ICRF-187 (Proceedings of the National Academy of Sciences of the United States of America (September 16, 2003) 100:19 (10629-10634))

J. Berger, S. Classen, S. Olland, 2003, Proceedings of the National Academy of Sciences of the United States of America.

Erratum: Structure and mechanism of DNA topoisomerase II

J. Berger, S. Harrison, S. Gamblin, 1996 .

CRISPR-mediated adaptive immune systems in bacteria and archaea.

Rotem Sorek, Mark R. Wilson, J. Berger, 2013, Annual review of biochemistry.

Photosystem II: the reaction center of oxygenic photosynthesis.

David W. Russell, J. Berger, David J. Vinyard, 2013, Annual review of biochemistry.

Topoisomerase VI senses and exploits both DNA crossings and bends to facilitate strand passage

J. Berger, T. Wendorff, 2018, eLife.

DNA through

M. Botchan, J. Berger, X. Darzacq, 2019 .

Biosynthesis of poly(γ-glutamylcysteinyl)glycines in cadmium-tolerant Datura innoxia (Mill.) cells

J. Berger, P. Jackson, R. Ratliff, 1988 .

The N-Terminal Domain of Nup 159 Forms a-Propeller that Functions in mRNA Export by Tethering the Helicase Dbp

J. Berger, K. Weis, J. Erzberger, 2004 .

Toward the computational design of protein crystals with improved resolution.

Jeffrey J. Gray, Jeffrey J Gray, Jeliazko R Jeliazkov, 2019, Acta crystallographica. Section D, Structural biology.