Katsuhiko Murakami

Professor of Biochemistry and Molecular Biology

Katsuhiko Murakami

Research Summary

Structural and Mechanistic Enzymology of Prokaryotic RNA Polymerases

Huck Affiliations

Links

Publication Tags

Dna Directed Rna Polymerases X Rays Dna Escherichia Coli Transcription Rna Bacterial Rna Holoenzymes Mycobacterium Tuberculosis Rifamycin Sv Mutation Crystal Structure Rifampin Tuberculosis Archaeal Rna Dna Directed Dna Polymerase Enzymes Nucleotides Sigma Factor Metals Rna Polymerase Sigma 54 Crystallography In Vitro Techniques Bacteria Archaea

Most Recent Papers

Structure and function of an unusual flavodoxin from the domain Archaea

Divya Prakash, Prashanti R. Iyer, Suharti Suharti, Karim A. Walters, Michel Geovanni Santiago-Martinez, John H. Golbeck, Katsuhiko S. Murakami, James G. Ferry, 2019, Proceedings of the National Academy of Sciences of the United States of America on p. 25917-25922

Molecular basis of microhomology-mediated end-joining by purified full-length Polθ

Samuel J. Black, Ahmet Y. Ozdemir, Ekaterina Kashkina, Tatiana Kent, Timur Rusanov, Dejan Ristic, Yeonoh Shin, Antonio Suma, Trung Hoang, Gurushankar Chandramouly, Labiba A. Siddique, Nikita Borisonnik, Katherine Sullivan-Reed, Joseph S. Mallon, Tomasz Skorski, Vincenzo Carnevale, Katsuhiko S. Murakami, Claire Wyman, Richard T. Pomerantz, 2019, Nature communications on p. 4423

Structure-function comparisons of (p)ppApp vs (p)ppGpp for Escherichia coli RNA polymerase binding sites and for rrnB P1 promoter regulatory responses in vitro

Bożena Bruhn-Olszewska, Vadim Molodtsov, Michał Sobala, Maciej Dylewski, Katsuhiko Murakami, Michael Cashel, Katarzyna Potrykus, 2018, Biochimica et Biophysica Acta - Gene Regulatory Mechanisms on p. 731-742

Region 3.2 of the factor controls the stability of rRNA promoter complexes and potentiates their repression by DksA

Danil Pupov, Ivan Petushkov, Daria Esyunina, Katsuhiko S. Murakami, Andrey Kulbachinskiy, 2018, Nucleic acids research on p. 11477-11487

Cryo-EM structure of Escherichia coli <sup>70</sup> RNA polymerase and promoter DNA complex revealed a role of non-conserved region during the open complex formation

Anoop Narayanan, Frank S. Vago, Kunpeng Li, M. Zuhaib Qayyum, Dinesh Yernool, Wen Jiang, Katsuhiko S. Murakami, 2018, Journal of Biological Chemistry on p. 7367-7375

X-ray crystal structure of a reiterative transcription complex reveals an atypical RNA extension pathway

Katsuhiko S. Murakami, Yeonoh Shin, Charles L. Turnbough, Vadim Molodtsov, 2017, Proceedings of the National Academy of Sciences of the United States of America on p. 8211-8216

Structural basis for rifamycin resistance of bacterial RNA polymerase by the three most clinically important RpoB mutations found in Mycobacterium tuberculosis

Vadim Molodtsov, Nathan T. Scharf, Maxwell A. Stefan, George A. Garcia, Katsuhiko S. Murakami, 2017, Molecular Microbiology on p. 1034-1045

Novel chemical scaffolds for inhibition of rifamycin-resistant RNA polymerase discovered from high-throughput screening

Nathan T. Scharf, Vadim Molodtsov, Arrin Kontos, Katsuhiko S. Murakami, George A. Garcia, 2017, SLAS Discovery on p. 287-297

NusG is a sequence-specific RNA polymerase pause factor that binds to the non-template DNA within the paused transcription bubble

Alexander V. Yakhnin, Katsuhiko S. Murakami, Paul Babitzke, 2016, Journal of Biological Chemistry on p. 5299-5308

Structures of the RNA polymerase-σ<sup>54</sup> reveal new and conserved regulatory strategies

Yun Yang, Vidya C. Darbari, Nan Zhang, Duo Lu, Robert Glyde, Yi Ping Wang, Jared T. Winkelman, Richard L. Gourse, Katsuhiko S. Murakami, Martin Buck, Xiaodong Zhang, 2015, Science on p. 882-885

Most-Cited Papers

X-ray crystal structure of escherichia coli RNA polymerase σ<sup>70</sup> holoenzyme

Katsuhiko S. Murakami, 2013, Journal of Biological Chemistry on p. 9126-9134

Structural basis of transcription initiation by bacterial RNA polymerase holoenzyme

Ritwika S. Basu, Brittany A. Warner, Vadim Molodtsov, Danil Pupov, Daria Esyunina, Carlos Fernández-Tornero, Andrey Kulbachinskiy, Katsuhiko S. Murakami, 2014, Journal of Biological Chemistry on p. 24549-24559

Fitness costs of rifampicin resistance in Mycobacterium tuberculosis are amplified under conditions of nutrient starvation and compensated by mutation in the β′ subunit of RNA polymerase

Taeksun Song, Yumi Park, Isdore Chola Shamputa, Sunghwa Seo, Sun Young Lee, Han Seung Jeon, Hongjo Choi, Myungsun Lee, Richard J. Glynne, S. Whitney Barnes, John R. Walker, Serge Batalov, Karina Yusim, Shihai Feng, Chang Shung Tung, James Theiler, Laura E. Via, Helena I.M. Boshoff, Katsuhiko Murakami, Bette Korber, Clifton E. Barry, Sang Nae Cho, 2014, Molecular Microbiology on p. 1106-1119

Archaeal RNA polymerase and transcription regulation

Sung Hoon Jun, Matthew J. Reichlen, Momoko Tajiri, Katsuhiko Murakami, 2011, Critical Reviews in Biochemistry and Molecular Biology on p. 27-40

X-ray crystal structures of the Escherichia coli RNA polymerase in complex with benzoxazinorifamycins

Vadim Molodtsov, Irosha N. Nawarathne, Nathan T. Scharf, Paul D. Kirchhoff, H. D.Hollis Showalter, George A. Garcia, Katsuhiko Murakami, 2013, Journal of Medicinal Chemistry on p. 4758-4763

Structures of the RNA polymerase-σ<sup>54</sup> reveal new and conserved regulatory strategies

Yun Yang, Vidya C. Darbari, Nan Zhang, Duo Lu, Robert Glyde, Yi Ping Wang, Jared T. Winkelman, Richard L. Gourse, Katsuhiko S. Murakami, Martin Buck, Xiaodong Zhang, 2015, Science on p. 882-885

NusG is a sequence-specific RNA polymerase pause factor that binds to the non-template DNA within the paused transcription bubble

Alexander V. Yakhnin, Katsuhiko S. Murakami, Paul Babitzke, 2016, Journal of Biological Chemistry on p. 5299-5308

Watching the bacteriophage N4 RNA polymerase transcription by time-dependent soak-trigger-freeze x-ray crystallography

Ritwika S. Basu, Katsuhiko S. Murakami, 2013, Journal of Biological Chemistry on p. 3305-3311

The X-ray crystal structure of the euryarchaeal RNA polymerase in an open-clamp configuration

Sung Hoon Jun, Akira Hirata, Tamotsu Kanai, Thomas J. Santangelo, Tadayuki Imanaka, Katsuhiko S. Murakami, 2014, Nature communications

Structural basis for rifamycin resistance of bacterial RNA polymerase by the three most clinically important RpoB mutations found in Mycobacterium tuberculosis

Vadim Molodtsov, Nathan T. Scharf, Maxwell A. Stefan, George A. Garcia, Katsuhiko S. Murakami, 2017, Molecular Microbiology on p. 1034-1045