Katsuhiko Murakami
Professor of Biochemistry and Molecular Biology
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006 Althouse Lab
University Park, PA 16802 - kum14@psu.edu
- 814-865-2758
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 ArchaeaMost 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