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 Dna Bacterial Rna Escherichia Coli Holoenzymes Rna Deoxyribonucleic Acid Transcription X Rays Nucleic Acids Sugars X Ray Crystallography Proteins Mycobacterium Tuberculosis Bacteria Recycling Crystal Structure Protein Mutation Polytetrafluoroethylene Communication Rifampin Ribosomal Rna Cryo Electron Microscopy Substrates

Most Recent Papers

Identification of SARS-CoV-2 inhibitors targeting Mpro and PLpro using in-cell-protease assay

Anoop Narayanan, Manju Narwal, Sydney A. Majowicz, Carmine Varricchio, Shay A. Toner, Carlo Ballatore, Andrea Brancale, Katsuhiko S. Murakami, Joyce Jose, 2022, Communications Biology

Structural basis of RNA polymerase recycling by the Swi2/Snf2 family of ATPase RapA in Escherichia coli

M. Zuhaib Qayyum, Vadim Molodtsov, Andrew Renda, Katsuhiko S. Murakami, 2021, Journal of Biological Chemistry

The mechanism of the nucleo-sugar selection by multi-subunit RNA polymerases

Janne J. Mäkinen, Yeonoh Shin, Eeva Vieras, Pasi Virta, Mikko Metsä-Ketelä, Katsuhiko S. Murakami, Georgiy A. Belogurov, 2021, Nature Communications

Structural basis of ribosomal RNA transcription regulation

Yeonoh Shin, M. Zuhaib Qayyum, Danil Pupov, Daria Esyunina, Andrey Kulbachinskiy, Katsuhiko S. Murakami, 2021, Nature Communications

Transcription | RNA polymerase reaction in bacteria

Mohammad Z. Qayyum, Yeonoh Shin, Katsuhiko S. Murakami, 2021, on p. 358-364

Watching the bacterial RNA polymerase transcription reaction by time-dependent soak-trigger-freeze X-ray crystallography: Viral Replication Enzymes and their Inhibitors Part A

Yeonoh Shin, Katsuhiko Murakami, 2021, THE ENZYMES on p. 305-314

Direct binding of TFEα opens DNA binding cleft of RNA polymerase

Sung Hoon Jun, Jaekyung Hyun, Jeong Seok Cha, Hoyoung Kim, Michael S. Bartlett, Hyun Soo Cho, Katsuhiko S. Murakami, 2020, Nature Communications

Mycobacterial HelD is a nucleic acids-clearing factor for RNA polymerase

Tomáš Kouba, Tomáš Koval’, Petra Sudzinová, Jiří Pospíšil, Barbora Brezovská, Jarmila Hnilicová, Hana Šanderová, Martina Janoušková, Michaela Šiková, Petr Halada, Michal Sýkora, Ivan Barvík, Jiří Nováček, Mária Trundová, Jarmila Dušková, Tereza Skálová, URee R. Chon, Katsuhiko S. Murakami, Jan Dohnálek, Libor Krásný, 2020, Nature Communications

Publisher Correction

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, 2020, Nature Communications

Evaluation of Bacterial RNA Polymerase Inhibitors in a Staphylococcus aureus-Based Wound Infection Model in SKH1 Mice

Jörg Haupenthal, Yannik Kautz, Walid A.M. Elgaher, Linda Pätzold, Teresa Röhrig, Matthias W. Laschke, Thomas Tschernig, Anna K.H. Hirsch, Vadim Molodtsov, Katsuhiko S. Murakami, Rolf W. Hartmann, Markus Bischoff, 2020, ACS Infectious Diseases on p. 2573-2581

Most-Cited Papers

Recent functional insights into the role of (p)ppGpp in bacterial physiology

Vasili Hauryliuk, Gemma C. Atkinson, Katsuhiko S. Murakami, Tanel Tenson, Kenn Gerdes, 2015, Nature Reviews Microbiology on p. 298-309

Differential regulation by ppGpp versus pppGpp in Escherichia coli

Undine Mechold, Katarzyna Potrykus, Helen Murphy, Katsuhiko S. Murakami, Michael Cashel, 2013, Nucleic Acids Research on p. 6175-6189

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

Structural biology of bacterial RNA polymerase

Katsuhiko S. Murakami, 2015, Biomolecules on p. 848-864

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 S. Murakami, Bette Korber, Clifton E. Barry, Sang Nae Cho, 2014, Molecular Microbiology on p. 1106-1119

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

Allosteric Effector ppGpp Potentiates the Inhibition of Transcript Initiation by DksA

Vadim Molodtsov, Elena Sineva, Lu Zhang, Xuhui Huang, Michael Cashel, Sarah E. Ades, Katsuhiko S. Murakami, 2018, Molecular Cell on p. 828-839.e5

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

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 S. Murakami, 2013, Journal of Medicinal Chemistry on p. 4758-4763