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Select item 114815231.

Regulation of bacterial stringent response by an evolutionarily conserved ribosomal protein L11 methylation

Hanna E. Walukiewicz, Yuliya Farris, Meagan C. Burnet, Sarah C. Feid, Youngki You, Hyeyoon Kim, Thomas Bank, David Christensen, Samuel H. Payne, Alan J. Wolfe, Christopher V. Rao, Ernesto S. Nakayasu

mBio. 2024 Oct; 15(10): e01773-24. Published online 2024 Aug 27. doi: 10.1128/mbio.01773-24

PMCID:: PMC11481523

Abstract Article PDF–3.4M

Select item 54545332.

Optimized fragmentation schemes and data analysis strategies for proteome-wide cross-link identification

Fan Liu, Philip Lössl, Richard Scheltema, Rosa Viner, Albert J. R. Heck

Nat Commun. 2017; 8: 15473. Published online 2017 May 19. doi: 10.1038/ncomms15473

PMCID:: PMC5454533

Abstract Article PDF–1.5M

Select item 45226993.

Michael R. Wasserman, Arto Pulk, Zhou Zhou, Roger B. Altman, John C. Zinder, Keith D. Green, Sylvie Garneau-Tsodikova, Jamie H. Doudna Cate, Scott C. Blanchard

Nat Commun. 2015; 6: 7896. Published online 2015 Jul 30. doi: 10.1038/ncomms8896

PMCID:: PMC4522699

Abstract Article PDF–2.5M

Select item 41238554.

The binary protein-protein interaction landscape of Escherichia coli

Seesandra V. Rajagopala, Patricia Sikorski, Ashwani Kumar, Roberto Mosca, James Vlasblom, Roland Arnold, Jonathan Franca-Koh, Suman B. Pakala, Sadhna Phanse, Arnaud Ceol, Roman Häuser, Gabriella Siszler, Stefan Wuchty, Andrew Emili, Mohan Babu, Patrick Aloy, Rembert Pieper, Peter Uetz

Nat Biotechnol. Author manuscript; available in PMC 2014 Sep 1.

Published in final edited form as: Nat Biotechnol. 2014 Mar; 32(3): 285–290. Published online 2014 Feb 23. doi: 10.1038/nbt.2831

PMCID:: PMC4123855

Abstract Article PDF–1.1M

Select item 35059675.

Common chaperone activity in the G-domain of trGTPase protects L11–L12 interaction on the ribosome

Dandan Zhang, Guangqiao Liu, Jiaying Xue, Jizhong Lou, Knud H. Nierhaus, Weimin Gong, Yan Qin

Nucleic Acids Res. 2012 Nov; 40(21): 10851–10865. Published online 2012 Sep 8. doi: 10.1093/nar/gks833

PMCID:: PMC3505967

Abstract Article PDF–7.6M

Select item 32853556.

YajL, Prokaryotic Homolog of Parkinsonism-associated Protein DJ-1, Functions as a Covalent Chaperone for Thiol Proteome

Hai-Tuong Le, Valérie Gautier, Fatoum Kthiri, Abderrahim Malki, Nadia Messaoudi, Mouadh Mihoub, Ahmed Landoulsi, Young Jun An, Sun-Shin Cha, Gilbert Richarme

J Biol Chem. 2012 Feb 17; 287(8): 5861–5870. Published online 2011 Dec 7. doi: 10.1074/jbc.M111.299198

PMCID:: PMC3285355

Abstract Article PDF–1.2M

Select item 29192097.

Structures of the ribosome in intermediate states of ratcheting

Wen Zhang, Jack Dunkle, Jamie H. D. Cate

Science. Author manuscript; available in PMC 2010 Aug 10.

Published in final edited form as: Science. 2009 Aug 21; 325(5943): 1014–1017. doi: 10.1126/science.1175275

PMCID:: PMC2919209

Abstract Article PDF–2.2M

Select item 27786118.

Regulation of the protein-conducting channel by a bound ribosome

James Gumbart, Leonardo G. Trabuco, Eduard Schreiner, Elizabeth Villa, Klaus Schulten

Structure. Author manuscript; available in PMC 2010 Nov 11.

Published in final edited form as: Structure. 2009 Nov 11; 17(11): 1453–1464. doi: 10.1016/j.str.2009.09.010

PMCID:: PMC2778611

Abstract Article PDF–3.1M

Select item 26982959.

Optimization of a Ribosomal Structural Domain by Natural Selection

Corina Maeder, Graeme L. Conn, David E. Draper

Biochemistry. Author manuscript; available in PMC 2009 Jun 18.

Published in final edited form as: Biochemistry. 2006 May 30; 45(21): 6635–6643. doi: 10.1021/bi052544p

PMCID:: PMC2698295

Abstract Article PDF–874K

Select item 268406210.

Multiple-Site Trimethylation of Ribosomal Protein L11 by the PrmA Methyltransferase

Hasan Demirci, Steven T. Gregory, Albert E. Dahlberg, Gerwald Jogl

Structure. Author manuscript; available in PMC 2009 May 19.

Published in final edited form as: Structure. 2008 Jul; 16(7): 1059–1066. doi: 10.1016/j.str.2008.03.016

PMCID:: PMC2684062

Abstract Article PDF–2.5M

Select item 258680211.

Recognition of aminoacyl-tRNA: a common molecular mechanism revealed by cryo-EM

Wen Li, Xabier Agirrezabala, Jianlin Lei, Lamine Bouakaz, Julie L Brunelle, Rodrigo F Ortiz-Meoz, Rachel Green, Suparna Sanyal, Måns Ehrenberg, Joachim Frank

EMBO J. 2008 Dec 17; 27(24): 3322–3331. Published online 2008 Nov 20. doi: 10.1038/emboj.2008.243

PMCID:: PMC2586802

Abstract Article PDF–2.1M

Select item 229217712.

Protein abundance profiling of the Escherichia coli cytosol

Yasushi Ishihama, Thorsten Schmidt, Juri Rappsilber, Matthias Mann, F Ulrich Hartl, Michael J Kerner, Dmitrij Frishman

BMC Genomics. 2008; 9: 102. Published online 2008 Feb 27. doi: 10.1186/1471-2164-9-102

PMCID:: PMC2292177

Abstract Article PDF–1.0M

Select item 217535613.

In vivo assembling of bacterial ribosomal protein L11 into yeast ribosomes makes the particles sensitive to the prokaryotic specific antibiotic thiostrepton

Alberto García-Marcos, Antonio Morreale, Esther Guarinos, Elisa Briones, Miguel Remacha, Angel R. Ortiz, Juan P. G. Ballesta

Nucleic Acids Res. 2007 Dec; 35(21): 7109–7117. Published online 2007 Oct 16. doi: 10.1093/nar/gkm773

PMCID:: PMC2175356

Abstract Article PDF–3.1M

Select item 168148214.

Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection

Tomoya Baba, Takeshi Ara, Miki Hasegawa, Yuki Takai, Yoshiko Okumura, Miki Baba, Kirill A Datsenko, Masaru Tomita, Barry L Wanner, Hirotada Mori

Mol Syst Biol. 2006; 2: 2006.0008. Published online 2006 Feb 21. doi: 10.1038/msb4100050

PMCID:: PMC1681482

Abstract Article PDF–400K

Select item 168148115.

Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110

Koji Hayashi, Naoki Morooka, Yoshihiro Yamamoto, Katsutoshi Fujita, Katsumi Isono, Sunju Choi, Eiichi Ohtsubo, Tomoya Baba, Barry L Wanner, Hirotada Mori, Takashi Horiuchi

Mol Syst Biol. 2006; 2: 2006.0007. Published online 2006 Feb 21. doi: 10.1038/msb4100049

PMCID:: PMC1681481

Abstract Article PDF–141K

Select item 163532416.

Stability of the ‘L12 stalk’ in ribosomes from mesophilic and (hyper)thermophilic Archaea and Bacteria

D. Shcherbakov, M. Dontsova, M. Tribus, M. Garber, W. Piendl

Nucleic Acids Res. 2006 Nov; 34(20): 5800–5814. Published online 2006 Oct 19. doi: 10.1093/nar/gkl751

PMCID:: PMC1635324

Abstract Article PDF–726K

Select item 145705217.

Large-scale identification of protein–protein interaction of Escherichia coli K-12

Mohammad Arifuzzaman, Maki Maeda, Aya Itoh, Kensaku Nishikata, Chiharu Takita, Rintaro Saito, Takeshi Ara, Kenji Nakahigashi, Hsuan-Cheng Huang, Aki Hirai, Kohei Tsuzuki, Seira Nakamura, Mohammad Altaf-Ul-Amin, Taku Oshima, Tomoya Baba, Natsuko Yamamoto, Tomoyo Kawamura, Tomoko Ioka-Nakamichi, Masanari Kitagawa, Masaru Tomita, Shigehiko Kanaya, Chieko Wada, Hirotada Mori

Genome Res. 2006 May; 16(5): 686–691. doi: 10.1101/gr.4527806

PMCID:: PMC1457052

Abstract Article PDF–536K

Select item 132520018.

Escherichia coli K-12: a cooperatively developed annotation snapshot—2005

Monica Riley, Takashi Abe, Martha B. Arnaud, Mary K.B. Berlyn, Frederick R. Blattner, Roy R. Chaudhuri, Jeremy D. Glasner, Takashi Horiuchi, Ingrid M. Keseler, Takehide Kosuge, Hirotada Mori, Nicole T. Perna, Guy Plunkett, III, Kenneth E. Rudd, Margrethe H. Serres, Gavin H. Thomas, Nicholas R. Thomson, David Wishart, Barry L. Wanner

Nucleic Acids Res. 2006; 34(1): 1–9. Published online 2006 Jan 5. doi: 10.1093/nar/gkj405