Evgeny A Nudler

Biosketch / Results /

Evgeny A Nudler, Ph.D.

Julie Wilson Anderson Professor of Biochemistry;
Department of Biochemistry and Molecular Pharmacology

Contact Info

450 East 29th street
Floor 3 Room 301
New York, NY 10016


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1991-1995 — Institute of Molecular Genetics, Moscow, Russia, PhD in Biochemistry, Graduate Education
1995-1997 — Public Health Research Institute, NY, Biochemistry, PostDoctoral Training

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Research Summary

http://nudlerlab.info/ Our laboratory pursues three major, not overlapping avenues:

1. Transcription Elongation and Gene Control. Transcription, the central step in gene expression and regulation, is carried out by DNA-dependent RNA polymerase (RNAP). Cellular RNAPs are large, multisubunit assemblies. Their complexity reflects an involvement in interactions with numerous regulatory signals and factors that modulate enzyme activity at all stages of transcription. Our research is focused on understanding of the transcription elongation process and its regulation at the detailed molecular level. Using various biochemical and protein chemical tools developed in the lab over the years, we address the following fundamental questions: how RNAP moves, how it responds to regulatory RNA and DNA signals and factors, and how it terminates transcription.

2. Natural RNA Sensors and Stress Response. Gene control systems in all organisms face a tremendous challenge to rapidly adjust gene expression to environmental changes. Traditionally, protein-based systems have been implicated in this process. However, we have discovered RNA transcripts that sense small molecules (metabolites) and stress directly to regulate a large number of genes in various organisms. One class of RNA sensors (a.k.a. riboswitches) monitors the level of metabolites (e.g. vitamins, amino acids, nucleotides) in bacteria, fungi, or plants via direct binding to those molecules. Riboswitches adjust gene expression to cellular needs by modulating transcription, translation, and RNA processing of cognate genes. We continue looking for new riboswitches and characterize mechanisms of known members of this group. Another type of an RNA sensor we found in eukaryotes from fly to man. This conserved non-coding RNA is essential for heat shock genes activation and is likely to monitor temperature. The exciting mechanism of this process is under investigation. Heat shock proteins (Hsp) are major cytoprotective components of the cell. They also play critical anti-apoptotic and anti-inflammatory roles. Many tumors display deregulated expression of Hsp, whose elevated levels contribute to resistance to chemo- and radiotherapy. Our long-term goal is the development of small molecules targeting the RNA thermosensor to treat cancer, ischemia/reperfusion injury, and inflammation.

3. Biochemistry and Physiology of Nitric Oxide. Nitric oxide (NO) is synthesized by arginine-oxidizing NO-synthases (NOS) in a wide variety of cells. Amazingly, this promiscuous free radical is involved in numerous biological functions, including vasodilation, blood clotting, neurotransmission, and inflammation. In many cases NO exerts its bioactivity by modifying (nitrosating and nitrating) proteins and small molecules. In the past several years we have uncovered a conceptually new mechanism explaining these reactions. Based on this mechanism, which relies on principals of micellar catalysis, we are designing low molecular weight compounds for manipulating NO bioactivity and treating various disorders associated with NO imbalance. In a separate line of research we study NO in bacteria and explore a possibility of using it as a new antimicrobial target. Analysis of bacterial genomes reveals that NOS exists in many Gram(+) bacteria including such notorious pathogens as S.aureus and B.anthracis. Our recent results demonstrate that NO protects bacteria from oxidative stress and suggest a possible role of NO in defending pathogens against immune oxidative attack.

Research Interests

Transcription, Stress Response, Nitric Oxide

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All data from NYU Health Sciences Library Faculty Bibliography — -


Trigger loop folding determines transcription rate of Escherichia coli's RNA polymerase
Mejia, Yara X; Nudler, Evgeny; Bustamante, Carlos
2015 Jan;112(3):743-748, Proceedings of the National Academy of Sciences of the United States of America
— id: 1440982, year: 2015, vol: 112, page: 743, stat: Journal Article,

Therapeutic effect of exogenous hsp70 in mouse models of Alzheimer's disease
Bobkova, Natalia V; Garbuz, David G; Nesterova, Inna; Medvinskaya, Natalia; Samokhin, Alexander; Alexandrova, Irina; Yashin, Valerii; Karpov, Vadim; Kukharsky, Michail S; Ninkina, Natalia N; Smirnov, Andrey A; Nudler, Evgeny; Evgen'ev, Michael
2014 Jan;38(2):425-435, Journal of Alzheimer's disease
— id: 687662, year: 2014, vol: 38, page: 425, stat: Journal Article,

UvrD facilitates DNA repair by pulling RNA polymerase backwards
Epshtein, Vitaly; Kamarthapu, Venu; McGary, Katelyn; Svetlov, Vladimir; Ueberheide, Beatrix; Proshkin, Sergey; Mironov, Alexander; Nudler, Evgeny
2014 Jan;505(7483):372-377, Nature
— id: 741112, year: 2014, vol: 505, page: 372, stat: Journal Article,

Phosphorylation of Ser8 promotes zinc-induced dimerization of the amyloid-beta metal-binding domain
Kulikova, Alexandra A; Tsvetkov, Philipp O; Indeykina, Maria I; Popov, Igor A; Zhokhov, Sergey S; Golovin, Andrey V; Polshakov, Vladimir I; Kozin, Sergey A; Nudler, Evgeny; Makarov, Alexander A
2014 Aug;10(10):2590-2596, Molecular bioSystems
— id: 1268492, year: 2014, vol: 10, page: 2590, stat: Journal Article,

Bacterial gasotransmitters: an innate defense against antibiotics
Luhachack, Lyly; Nudler, Evgeny
2014 Oct;21:13-17, Current opinion in microbiology
— id: 1440692, year: 2014, vol: 21, page: 13, stat: Journal Article,

Riboswitches in regulation of Rho-dependent transcription termination
Proshkin, Sergey; Mironov, Alexander; Nudler, Evgeny
2014 Oct;1839(10):974-977, Biochimica & biophysica acta
— id: 1362732, year: 2014, vol: 1839, page: 974, stat: Journal Article,

Role of H2S and NO in Bacillus anthracis spore formation and virulence
Shatalin, K; Nudler, E
2014 30 May 2014;39:S10-S10, Nitric oxide : biology & chemistry
— id: 1154012, year: 2014, vol: 39, page: S10, stat: Journal Article,

The translation elongation factor eEF1A1 couples transcription to translation during heat shock response
Vera, Maria; Pani, Bibhusita; Griffiths, Lowri A; Muchardt, Christian; Abbott, Catherine M; Singer, Robert H; Nudler, Evgeny
2014 ;3:e03164-e03164 e1004376, eLife
— id: 1252382, year: 2014, vol: 3, page: e03164, stat: Journal Article,

Dynamics of endogenous Hsp70 synthesis in the brain of olfactory bulbectomized mice
Bobkova, Natalia; Guzhova, Irina; Margulis, Boris; Nesterova, Inna; Medvedinskaya, Natalia; Samokhin, Alexander; Alexandrova, Irina; Garbuz, David; Nudler, Evgeny; Evgen'ev, Michael
2013 Jan;18(1):109-118, Cell stress chaperones
— id: 205622, year: 2013, vol: 18, page: 109, stat: Journal Article,

Bacterial Nitric Oxide Extends the Lifespan of C. elegans
Gusarov, Ivan; Gautier, Laurent; Smolentseva, Olga; Shamovsky, Ilya; Eremina, Svetlana; Mironov, Alexander; Nudler, Evgeny
2013 Feb;152(4):818-830, Cell
— id: 223252, year: 2013, vol: 152, page: 818, stat: Journal Article,

Transcription-replication encounters, consequences and genomic instability
Helmrich, Anne; Ballarino, Monica; Nudler, Evgeny; Tora, Laszlo
2013 Apr;20(4):412-418, Nature structural & molecular biology
— id: 306252, year: 2013, vol: 20, page: 412, stat: Journal Article,

RNA polymerase and the ribosome: the close relationship
McGary, Katelyn; Nudler, Evgeny
2013 Apr;16(2):112-117, Current opinion in microbiology
— id: 335482, year: 2013, vol: 16, page: 112, stat: Journal Article,

The RNA polymerase bridge helix YFI motif in catalysis, fidelity and translocation
Nedialkov, Yuri A; Opron, Kristopher; Assaf, Fadi; Artsimovitch, Irina; Kireeva, Maria L; Kashlev, Mikhail; Cukier, Robert I; Nudler, Evgeny; Burton, Zachary F
2013 Feb;1829(2):187-198, Biochimica & biophysica acta
— id: 213962, year: 2013, vol: 1829, page: 187, stat: Journal Article,

A decade of riboswitches
Serganov, Alexander; Nudler, Evgeny
2013 Jan;152(1-2):17-24, Cell
— id: 213732, year: 2013, vol: 152, page: 17, stat: Journal Article,

Basic mechanism of transcription by RNA polymerase II
Svetlov, Vladimir; Nudler, Evgeny
2013 Jan;1829(1):20-28, Biochimica & biophysica acta
— id: 213252, year: 2013, vol: 1829, page: 20, stat: Journal Article,

Looking for a promoter in 3D
Svetlov, Vladimir; Nudler, Evgeny
2013 Feb;20(2):141-142, Nature structural & molecular biology
— id: 218052, year: 2013, vol: 20, page: 141, stat: Journal Article,

Methicillin-resistant Staphylococcus aureus Bacterial Nitric-oxide Synthase Affects Antibiotic Sensitivity and Skin Abscess Development
van Sorge, Nina M; Beasley, Federico C; Gusarov, Ivan; Gonzalez, David J; von Kockritz-Blickwede, Maren; Anik, Sabina; Borkowski, Andrew W; Dorrestein, Pieter C; Nudler, Evgeny; Nizet, Victor
2013 Mar;288(9):6417-6426, Journal of biological chemistry
— id: 231692, year: 2013, vol: 288, page: 6417, stat: Journal Article,

S-Nitrosylation Signaling in Escherichia coli
Gusarov, Ivan; Nudler, Evgeny
2012 ;5(228):pe26-pe26 pe26, Science signaling
— id: 169521, year: 2012, vol: 5, page: pe26, stat: Journal Article,

Nitric oxide produced by bacteria extends C. elegans lifespan
Gusarov, Ivan; Smolentseva, Olga; Gautier, Laurent; Nudler, Evgeny
2012 JUL 15;27 1 1:S46-S46, Nitric oxide : biology & chemistry
— id: 174420, year: 2012, vol: 27 1 1, page: S46, stat: Journal Article,

Riboswitch control of Rho-dependent transcription termination
Hollands, Kerry; Proshkin, Sergey; Sklyarova, Svetlana; Epshtein, Vitaly; Mironov, Alexander; Nudler, Evgeny; Groisman, Eduardo A
2012 Apr;109(14):5376-5381, Proceedings of the National Academy of Sciences of the United States of America
— id: 167753, year: 2012, vol: 109, page: 5376, stat: Journal Article,

RNA polymerase stalls in a post-translocated register and can hyper-translocate
Nedialkov, Yuri A; Nudler, Evgeny; Burton, Zachary F
2012 Sep;3(5):187-198, Transcription
— id: 231682, year: 2012, vol: 3, page: 187, stat: Journal Article,

RNA polymerase backtracking in gene regulation and genome instability
Nudler, Evgeny
2012 Jun;149(7):1438-1445, Cell
— id: 170432, year: 2012, vol: 149, page: 1438, stat: Journal Article,

Response to Klyuyev and Vassylyev: On the mechanism of tagetitoxin inhibition of transcription
Svetlov, Vladimir; Artsimovitch, Irina; Nudler, Evgeny
2012 Mar;3(2):51-55, Transcription
— id: 166503, year: 2012, vol: 3, page: 51, stat: Journal Article,

Unfolding the Bridge between Transcription and Translation
Svetlov, Vladimir; Nudler, Evgeny
2012 Jul;150(2):243-245, Cell
— id: 174083, year: 2012, vol: 150, page: 243, stat: Journal Article,

Tagetitoxin inhibits RNA polymerase through trapping of the trigger loop
Artsimovitch, Irina; Svetlov, Vladimir; Nemetski, Sondra Maureen; Epshtein, Vitaly; Cardozo, Timothy; Nudler, Evgeny
2011 Nov;286(46):40395-40400, Journal of biological chemistry
— id: 163513, year: 2011, vol: 286, page: 40395, stat: Journal Article,

The profound therapeutic effect of exogenous Hsp70 on Alzheimer's type degeneration in olfactory bulbectomized mice
Bobkova N.; Guzhova I.; Margulis B.; Nesterova I.; Medvedinskaya N.; Samokhin A.; Alexandrova I.; Yashin V.; Garbuz D.; Karpov V.; Evgen'ev M.; Nudler E.
2011 ;8:?-?, Neuro-degenerative diseases
— id: 136532, year: 2011, vol: 8, page: ?, stat: Journal Article,

Linking RNA Polymerase Backtracking to Genome Instability in E. coli
Dutta, Dipak; Shatalin, Konstantin; Epshtein, Vitaly; Gottesman, Max E; Nudler, Evgeny
2011 Aug 19;146(4):533-543, Cell
— id: 136948, year: 2011, vol: 146, page: 533, stat: Journal Article,

Functional Organization of hsp70 Cluster in Camel (Camelus dromedarius) and Other Mammals
Garbuz, David G; Astakhova, Lubov N; Zatsepina, Olga G; Arkhipova, Irina R; Nudler, Eugene; Evgen'ev, Michael B
2011 ;6(11):e27205-e27205, PLoS one
— id: 142068, year: 2011, vol: 6, page: e27205, stat: Journal Article,

A unified model of transcription elongation: what have we learned from single-molecule experiments?
Maoileidigh, Daibhid O; Tadigotla, Vasisht R; Nudler, Evgeny; Ruckenstein, Andrei E
2011 Mar 2;100(5):1157-1166, Biophysical journal
— id: 134116, year: 2011, vol: 100, page: 1157, stat: Journal Article,

H2S: a universal defense against antibiotics in bacteria
Shatalin, Konstantin; Shatalina, Elena; Mironov, Alexander; Nudler, Evgeny
2011 Nov 18;334(6058):986-990, Science
— id: 141709, year: 2011, vol: 334, page: 986, stat: Journal Article,

Clamping the clamp of RNA polymerase
Svetlov, Vladimir; Nudler, Evgeny
2011 Apr 6;30(7):1190-1191, EMBO journal
— id: 130311, year: 2011, vol: 30, page: 1190, stat: Journal Article,

An allosteric mechanism of Rho-dependent transcription termination
Epshtein, Vitaly; Dutta, Dipak; Wade, Joseph; Nudler, Evgeny
2010 Jan 14;463(7278):245-249, Nature
— id: 106244, year: 2010, vol: 463, page: 245, stat: Journal Article,

Cooperation between translating ribosomes and RNA polymerase in transcription elongation
Proshkin, Sergey; Rahmouni, A Rachid; Mironov, Alexander; Nudler, Evgeny
2010 Apr 23;328(5977):504-508, Science
— id: 109517, year: 2010, vol: 328, page: 504, stat: Journal Article,

Transcription inactivation through local refolding of the RNA polymerase structure
Belogurov, Georgiy A; Vassylyeva, Marina N; Sevostyanova, Anastasiya; Appleman, James R; Xiang, Alan X; Lira, Ricardo; Webber, Stephen E; Klyuyev, Sergiy; Nudler, Evgeny; Artsimovitch, Irina; Vassylyev, Dmitry G
2009 Jan 15;457(7227):332-335, Nature
— id: 108810, year: 2009, vol: 457, page: 332, stat: Journal Article,

Endogenous nitric oxide protects bacteria against a wide spectrum of antibiotics
Gusarov, Ivan; Shatalin, Konstantin; Starodubtseva, Marina; Nudler, Evgeny
2009 Sep 11;325(5946):1380-1384, Science
— id: 102402, year: 2009, vol: 325, page: 1380, stat: Journal Article,

Transcriptional approaches to riboswitch studies
Mironov, Alexander; Epshtein, Vitaly; Nudler, Evgeny
2009 ;540:39-51, Methods in molecular biology
— id: 98005, year: 2009, vol: 540, page: 39, stat: Journal Article,

RNA polymerase active center: the molecular engine of transcription
Nudler, Evgeny
2009 ;78:335-361, Annual review of biochemistry
— id: 99246, year: 2009, vol: 78, page: 335, stat: Journal Article,

Isolation and characterization of the heat shock RNA 1
Shamovsky, Ilya; Nudler, Evgeny
2009 ;540:265-279, Methods in molecular biology
— id: 98006, year: 2009, vol: 540, page: 265, stat: Journal Article,

Targeting eEF1A by a Legionella pneumophila effector leads to inhibition of protein synthesis and induction of host stress response
Shen, Xihui; Banga, Simran; Liu, Yancheng; Xu, Li; Gao, Ping; Shamovsky, Ilya; Nudler, Evgeny; Luo, Zhao-Qing
2009 Jun;11(6):911-926, Cellular microbiology
— id: 231662, year: 2009, vol: 11, page: 911, stat: Journal Article,

Macromolecular micromovements: how RNA polymerase translocates
Svetlov, Vladimir; Nudler, Evgeny
2009 Dec;19(6):701-707, Current opinion in structural biology
— id: 105503, year: 2009, vol: 19, page: 701, stat: Journal Article,

RNA polymerase: the vehicle of transcription
Borukhov, Sergei; Nudler, Evgeny
2008 Mar;16(3):126-134, Trends in microbiology
— id: 76132, year: 2008, vol: 16, page: 126, stat: Journal Article,

Termination factor Rho and its cofactors NusA and NusG silence foreign DNA in E. coli
Cardinale, Christopher J; Washburn, Robert S; Tadigotla, Vasisht R; Brown, Lewis M; Gottesman, Max E; Nudler, Evgeny
2008 May 16;320(5878):935-938, Science
— id: 78869, year: 2008, vol: 320, page: 935, stat: Journal Article,

Bacterial NO-synthases operate without a dedicated redox partner
Gusarov, Ivan; Starodubtseva, Marina; Wang, Zhi-Qiang; McQuade, Lindsey; Lippard, Stephen J; Stuehr, Dennis J; Nudler, Evgeny
2008 May 9;283(19):13140-13147, Journal of biological chemistry
— id: 76130, year: 2008, vol: 283, page: 13140, stat: Journal Article,

New insights into the mechanism of heat shock response activation
Shamovsky, I; Nudler, E
2008 Mar;65(6):855-861, Cellular & molecular life sciences: CMLS
— id: 79154, year: 2008, vol: 65, page: 855, stat: Journal Article,

Modular RNA heats up
Shamovsky, Ilya; Nudler, Evgeny
2008 Feb 29;29(4):415-417, Molecular cell
— id: 76131, year: 2008, vol: 29, page: 415, stat: Journal Article,

Bacillus anthracis-derived nitric oxide is essential for pathogen virulence and survival in macrophages
Shatalin, Konstantin; Gusarov, Ivan; Avetissova, Ekaterina; Shatalina, Yelena; McQuade, Lindsey E; Lippard, Stephen J; Nudler, Evgeny
2008 Jan 22;105(3):1009-1013, Proceedings of the National Academy of Sciences of the United States of America
— id: 75858, year: 2008, vol: 105, page: 1009, stat: Journal Article,

Jamming the ratchet of transcription
Svetlov, Vladimir; Nudler, Evgeny
2008 Aug;15(8):777-779, Nature structural & molecular biology
— id: 231672, year: 2008, vol: 15, page: 777, stat: Journal Article,

Riboswitch-dependent gene regulation and its evolution in the plant kingdom
Bocobza, Samuel; Adato, Avital; Mandel, Tali; Shapira, Michal; Nudler, Evgeny; Aharoni, Asaph
2007 Nov 15;21(22):2874-2879, Genes & development
— id: 76133, year: 2007, vol: 21, page: 2874, stat: Journal Article,

An allosteric path to transcription termination
Epshtein, Vitaly; Cardinale, Christopher J; Ruckenstein, Andrei E; Borukhov, Sergei; Nudler, Evgeny
2007 Dec 28;28(6):991-1001, Molecular cell
— id: 75853, year: 2007, vol: 28, page: 991, stat: Journal Article,

Assessment of nitric oxide signals by triiodide chemiluminescence
Hausladen, Alfred; Rafikov, Ruslan; Angelo, Michael; Singel, David J; Nudler, Evgeny; Stamler, Jonathan S
2007 Feb 13;104(7):2157-2162, Proceedings of the National Academy of Sciences of the United States of America
— id: 76134, year: 2007, vol: 104, page: 2157, stat: Journal Article,

Adaptive mutations in RNA-based regulatory mechanisms: Computational and experimental investigations
Barash, D; Sikorski, J; Perry, EB; Nevo, E; Nudler, E
2006 NOV-DEC ;52(3-4):263-279, Israel journal of ecology & evolution
— id: 75200, year: 2006, vol: 52, page: 263, stat: Journal Article,

Transcription regulatory elements are punctuation marks for DNA replication
Mirkin, Ekaterina V; Castro Roa, Daniel; Nudler, Evgeny; Mirkin, Sergei M
2006 May 9;103(19):7276-7281, Proceedings of the National Academy of Sciences of the United States of America
— id: 76136, year: 2006, vol: 103, page: 7276, stat: Journal Article,

Flipping riboswitches
Nudler, Evgeny
2006 Jul 14;126(1):19-22, Cell
— id: 67853, year: 2006, vol: 126, page: 19, stat: Journal Article,

RNA-mediated response to heat shock in mammalian cells
Shamovsky, Ilya; Ivannikov, Maxim; Kandel, Eugene S; Gershon, David; Nudler, Evgeny
2006 Mar 23;440(7083):556-560, Nature
— id: 64139, year: 2006, vol: 440, page: 556, stat: Journal Article,

Gene control by large noncoding RNAs
Shamovsky, Ilya; Nudler, Evgeny
2006 Oct 3;2006(355):pe40-pe40, Science's STKE
— id: 69081, year: 2006, vol: 2006, page: pe40, stat: Journal Article,

Thermodynamic and kinetic modeling of transcriptional pausing
Tadigotla, Vasisht R; O Maoileidigh, Daibhid; Sengupta, Anirvan M; Epshtein, Vitaly; Ebright, Richard H; Nudler, Evgeny; Ruckenstein, Andrei E
2006 Mar 21;103(12):4439-4444, Proceedings of the National Academy of Sciences of the United States of America
— id: 76137, year: 2006, vol: 103, page: 4439, stat: Journal Article,

Extensive functional overlap between sigma factors in Escherichia coli
Wade, Joseph T; Roa, Daniel Castro; Grainger, David C; Hurd, Douglas; Busby, Stephen J W; Struhl, Kevin; Nudler, Evgeny
2006 Sep;13(9):806-814, Nature structural & molecular biology
— id: 76135, year: 2006, vol: 13, page: 806, stat: Journal Article,

A ratchet mechanism of transcription elongation and its control
Bar-Nahum, Gil; Epshtein, Vitaly; Ruckenstein, Andrei E; Rafikov, Ruslan; Mustaev, Arkady; Nudler, Evgeny
2005 Jan 28;120(2):183-193, Cell
— id: 48115, year: 2005, vol: 120, page: 183, stat: Journal Article,

NO-mediated cytoprotection: instant adaptation to oxidative stress in bacteria
Gusarov, Ivan; Nudler, Evgeny
2005 Sep 27;102(39):13855-13860, Proceedings of the National Academy of Sciences of the United States of America
— id: 76138, year: 2005, vol: 102, page: 13855, stat: Journal Article,

Genome review
Nudler, E
2004 MAR ;290(3):10-10, Scientific american
— id: 42501, year: 2004, vol: 290, page: 10, stat: Journal Article,

The riboswitch control of bacterial metabolism
Nudler, Evgeny; Mironov, Alexander S
2004 Jan;29(1):11-17, Trends in biochemical sciences
— id: 42616, year: 2004, vol: 29, page: 11, stat: Journal Article,

Control of plasma nitric oxide bioactivity by perfluorocarbons: physiological mechanisms and clinical implications
Rafikova, Olga; Sokolova, Elena; Rafikov, Ruslan; Nudler, Evgeny
2004 Dec 7;110(23):3573-3580, Circulation
— id: 48116, year: 2004, vol: 110, page: 3573, stat: Journal Article,

RNA polymerase holoenzyme: structure, function and biological implications
Borukhov, Sergei; Nudler, Evgeny
2003 Apr;6(2):93-100, Current opinion in microbiology
— id: 48118, year: 2003, vol: 6, page: 93, stat: Journal Article,

The riboswitch-mediated control of sulfur metabolism in bacteria
Epshtein, Vitaly; Mironov, Alexander S; Nudler, Evgeny
2003 Apr 29;100(9):5052-5056, Proceedings of the National Academy of Sciences of the United States of America
— id: 48120, year: 2003, vol: 100, page: 5052, stat: Journal Article,

Cooperation between RNA polymerase molecules in transcription elongation
Epshtein, Vitaly; Nudler, Evgeny
2003 May 2;300(5620):801-805, Science
— id: 48119, year: 2003, vol: 300, page: 801, stat: Journal Article,

Transcription through the roadblocks: the role of RNA polymerase cooperation
Epshtein, Vitaly; Toulme, Francine; Rahmouni, A Rachid; Borukhov, Sergei; Nudler, Evgeny
2003 Sep 15;22(18):4719-4727, EMBO journal
— id: 48117, year: 2003, vol: 22, page: 4719, stat: Journal Article,

Characterization of protein-nucleic acid interactions that are required for transcription processivity
Nudler, Evgeny; Avetissova, Ekaterina; Korzheva, Nataliya; Mustaev, Arkady
2003 ;371(5):179-190, Methods in enzymology
— id: 46281, year: 2003, vol: 371, page: 179, stat: Journal Article,

Analysis of the intrinsic transcription termination mechanism and its control
Nudler, Evgeny; Gusarov, Ivan
2003 ;371(5):369-382, Methods in enzymology
— id: 46280, year: 2003, vol: 371, page: 369, stat: Journal Article,

Methods of walking with the RNA polymerase
Nudler, Evgeny; Gusarov, Ivan; Bar-Nahum, Gil
2003 ;371(5):160-169, Methods in enzymology
— id: 46282, year: 2003, vol: 371, page: 160, stat: Journal Article,

Template switching by RNA polymerase II in vivo. Evidence and implications from a retroviral system
Kandel, Eugene S; Nudler, Evgeny
2002 Dec;10(6):1495-1502, Molecular cell
— id: 48121, year: 2002, vol: 10, page: 1495, stat: Journal Article,

Sensing small molecules by nascent RNA: a mechanism to control transcription in bacteria
Mironov, Alexander S; Gusarov, Ivan; Rafikov, Ruslan; Lopez, Lubov Errais; Shatalin, Konstantin; Kreneva, Rimma A; Perumov, Daniel A; Nudler, Evgeny
2002 Nov 27;111(5):747-756, Cell
— id: 48122, year: 2002, vol: 111, page: 747, stat: Journal Article,

Transcription termination and anti-termination in E. coli
Nudler, Evgeny; Gottesman, Max E
2002 Aug;7(8):755-768, Genes to cells
— id: 48123, year: 2002, vol: 7, page: 755, stat: Journal Article,

Catalysis of S-nitrosothiols formation by serum albumin: the mechanism and implication in vascular control
Rafikova, Olga; Rafikov, Ruslan; Nudler, Evgeny
2002 Apr 30;99(9):5913-5918, Proceedings of the National Academy of Sciences of the United States of America
— id: 32238, year: 2002, vol: 99, page: 5913, stat: Journal Article,

Isolation and characterization of sigma(70)-retaining transcription elongation complexes from Escherichia coli
Bar-Nahum G; Nudler E
2001 Aug 24;106(4):443-451, Cell
— id: 26677, year: 2001, vol: 106, page: 443, stat: Journal Article,

Control of intrinsic transcription termination by N and NusA: the basic mechanisms
Gusarov I; Nudler E
2001 Nov 16;107(4):437-449, Cell
— id: 26542, year: 2001, vol: 107, page: 437, stat: Journal Article,

An autocatalytic mechanism of protein nitrosylation
Nedospasov A; Rafikov R; Beda N; Nudler E
2000 Dec 5;97(25):13543-13548, Proceedings of the National Academy of Sciences of the United States of America
— id: 17430, year: 2000, vol: 97, page: 13543, stat: Journal Article,

The mechanism of intrinsic transcription termination
Gusarov I; Nudler E
1999 Apr;3(4):495-504, Molecular cell
— id: 56433, year: 1999, vol: 3, page: 495, stat: Journal Article,

Transcription elongation: structural basis and mechanisms
Nudler E
1999 Apr 23;288(1):1-12, Journal of molecular biology
— id: 6118, year: 1999, vol: 288, page: 1, stat: Journal Article,

Mechanistic model of the elongation complex of Escherichia coli RNA polymerase
Korzheva N; Mustaev A; Nudler E; Nikiforov V; Goldfarb A
1998 ;63(25):337-345, Cold Spring Harbor symposia on quantitative biology
— id: 17431, year: 1998, vol: 63, page: 337, stat: Journal Article,

Spatial organization of transcription elongation complex in Escherichia coli
Nudler E; Gusarov I; Avetissova E; Kozlov M; Goldfarb A
1998 Jul 17;281(5375):424-428, Science
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The RNA-DNA hybrid maintains the register of transcription by preventing backtracking of RNA polymerase
Nudler E; Mustaev A; Lukhtanov E; Goldfarb A
1997 Apr 4;89(1):33-41, Cell
— id: 17432, year: 1997, vol: 89, page: 33, stat: Journal Article,

Histidine-tagged RNA polymerase of Escherichia coli and transcription in solid phase
Kashlev M; Nudler E; Severinov K; Borukhov S; Komissarova N; Goldfarb A
1996 ;274(5272):326-334, Methods in enzymology
— id: 17434, year: 1996, vol: 274, page: 326, stat: Journal Article,

Transcription processivity: protein-DNA interactions holding together the elongation complex
Nudler E; Avetissova E; Markovtsov V; Goldfarb A
1996 Jul 12;273(5272):211-217, Science
— id: 17433, year: 1996, vol: 273, page: 211, stat: Journal Article,

Coupling between transcription termination and RNA polymerase inchworming
Nudler E; Kashlev M; Nikiforov V; Goldfarb A
1995 May 5;81(3):351-357, Cell
— id: 17435, year: 1995, vol: 81, page: 351, stat: Journal Article,

Motion and enzymatic degradation of DNA in the atomic force microscope
Bezanilla M; Drake B; Nudler E; Kashlev M; Hansma PK; Hansma HG
1994 Dec;67(6):2454-2459, Biophysical journal
— id: 17436, year: 1994, vol: 67, page: 2454, stat: Journal Article,

Discontinuous mechanism of transcription elongation
Nudler E; Goldfarb A; Kashlev M
1994 Aug 5;265(5173):793-796, Science
— id: 17437, year: 1994, vol: 265, page: 793, stat: Journal Article,

Bacteriophage T4 Alc protein: a transcription termination factor sensing local modification of DNA
Kashlev M; Nudler E; Goldfarb A; White T; Kutter E
1993 Oct 8;75(1):147-154, Cell
— id: 17438, year: 1993, vol: 75, page: 147, stat: Journal Article,

Cooperation of GroEL/GroES and DnaK/DnaJ heat shock proteins in preventing protein misfolding in Escherichia coli
Gragerov A; Nudler E; Komissarova N; Gaitanaris GA; Gottesman ME; Nikiforov V
1992 Nov 1;89(21):10341-10344, Proceedings of the National Academy of Sciences of the United States of America
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