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E. Petrotchenko · SciRah

Researcher profile · Semantic Scholar

E. Petrotchenko

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E. Petrotchenko — researcher profile on SciRah

h-index: 31
Works: 78
Citations: 2,871

Most-cited papers

Structure and function of sulfotransferases.
M. Negishi, Lee G. Pedersen, E. Petrotchenko, S. Shevtsov +3 more
2001Archives of Biochemistry and Biophysics320 citations
Semantic Scholar
Architecture of the RNA polymerase II–Mediator core initiation complex
C. Plaschka, L. Larivière, L. Wenzeck, M. Seizl +8 more
2015Nature295 citations Open access
Semantic Scholar
Crosslinking combined with mass spectrometry for structural proteomics.
E. Petrotchenko, C. Borchers
2010Mass spectrometry reviews (Print)197 citations
Semantic Scholar
An Isotopically Coded CID-cleavable Biotinylated Cross-linker for Structural Proteomics*
E. Petrotchenko, Jason J. Serpa, C. Borchers
2010Molecular & Cellular Proteomics123 citations Open access
Semantic Scholar
First Community-Wide, Comparative Cross-Linking Mass Spectrometry Study
C. Iacobucci, C. Piotrowski, R. Aebersold, Bruno C Amaral +70 more
2019Analytical Chemistry119 citations Open access
Semantic Scholar
Structure of EspB from the ESX-1 type VII secretion system and insights into its export mechanism.
M. Solomonson, Dheva Setiaputra, Karl A. T. Makepeace, Emilie Lameignère +8 more
2015Structure88 citations Open access
Semantic Scholar
Isotopically Coded Cleavable Cross-linker for Studying Protein-Protein Interaction and Protein Complexes*
E. Petrotchenko, V. Olkhovik, C. Borchers
2005Molecular & Cellular Proteomics88 citations Open access
Semantic Scholar
Solving protein structures using short-distance cross-linking constraints as a guide for discrete molecular dynamics simulations
Nicholas I. Brodie, K. Popov, E. Petrotchenko, N. Dokholyan +1 more
2017Science Advances87 citations Open access
Semantic Scholar
MeCP2 binds to nucleosome free (linker DNA) regions and to H3K9/H3K27 methylated nucleosomes in the brain
Anita A. Thambirajah, Marlee K. Ng, Lindsay J. Frehlick, Andra Li +12 more
2011Nucleic Acids Research79 citations Open access
Semantic Scholar
Structural and Biochemical Characterization of Plasmodium falciparum 12 (Pf12) Reveals a Unique Interdomain Organization and the Potential for an Antiparallel Arrangement with Pf41*
M. Tonkin, Silvia A. Arredondo, Bianca C. Loveless, Jason J. Serpa +6 more
2013Journal of Biological Chemistry71 citations Open access
Semantic Scholar
Crystallographic analysis of a hydroxylated polychlorinated biphenyl (OH-PCB) bound to the catalytic estrogen binding site of human estrogen sulfotransferase.
S. Shevtsov, E. Petrotchenko, L. Pedersen, M. Negishi
2003Environmental Health Perspectives69 citations Open access
Semantic Scholar
Crystal Structure of the Human Estrogen Sulfotransferase-PAPS Complex
L. Pedersen, E. Petrotchenko, S. Shevtsov, M. Negishi
2002Journal of Biological Chemistry66 citations Open access
Semantic Scholar
Conformational ensemble of native α-synuclein in solution as determined by short-distance crosslinking constraint-guided discrete molecular dynamics simulations
Nicholas I. Brodie, K. Popov, E. Petrotchenko, N. Dokholyan +1 more
2019PLoS Comput. Biol.62 citations Open access
Semantic Scholar
MeCP2-E1 isoform is a dynamically expressed, weakly DNA-bound protein with different protein and DNA interactions compared to MeCP2-E2
Alexia Martínez de Paz, Leila Khajavi, H. Martin, Rafael Claveria-Gimeno +19 more
2018Epigenetics & Chromatin58 citations Open access
Semantic Scholar
Substrate Gating Confers Steroid Specificity to Estrogen Sulfotransferase*
E. Petrotchenko, Mary E. Doerflein, Y. Kakuta, L. Pedersen +1 more
1999Journal of Biological Chemistry57 citations Open access
Semantic Scholar
Toward Increased Reliability, Transparency, and Accessibility in Cross-linking Mass Spectrometry.
A. Leitner, A. Bonvin, C. Borchers, R. Chalkley +32 more
2020Structure54 citations Open access
Semantic Scholar
Model of the Mediator middle module based on protein cross-linking
L. Larivière, C. Plaschka, M. Seizl, E. Petrotchenko +3 more
2013Nucleic Acids Research54 citations Open access
Semantic Scholar
BiPS, a Photocleavable, Isotopically Coded, Fluorescent Cross-linker for Structural Proteomics *
E. Petrotchenko, K. Xiao, J. Cable, Yi-Wen Chen +2 more
2009Molecular & Cellular Proteomics53 citations Open access
Semantic Scholar
Combined top-down and bottom-up proteomics identifies a phosphorylation site in stem-loop-binding proteins that contributes to high-affinity RNA binding.
C. Borchers, R. Thapar, E. Petrotchenko, Matthew P. Torres +4 more
2006Proceedings of the National Academy of Sciences of the United States of America51 citations
Semantic Scholar
Super Spy variants implicate flexibility in chaperone action
S. Quan, Lili Wang, E. Petrotchenko, Karl A. T. Makepeace +5 more
2014eLife50 citations Open access
Semantic Scholar
Isotopically-coded short-range hetero-bifunctional photo-reactive crosslinkers for studying protein structure.
Nicholas I. Brodie, Karl A. T. Makepeace, E. Petrotchenko, C. Borchers
2015Journal of Proteomics48 citations
Semantic Scholar
Crystal Structure of the Human Estrogen Sulfotransferase-PAPS Complex EVIDENCE FOR CATALYTIC ROLE OF Ser IN THE SULFURYL TRANSFER REACTION*
L. Pedersen, E. Petrotchenko, S. Shevtsov, M. Negishi
200248 citations
Semantic Scholar
Mass Spectrometry-Based Structural Proteomics
Jason J. Serpa, C. E. Parker, E. Petrotchenko, Jun Han +2 more
2012European Journal of Mass Spectrometry46 citations
Semantic Scholar
Use of Proteinase K Nonspecific Digestion for Selective and Comprehensive Identification of Interpeptide Cross-links: Application to Prion Proteins*
E. Petrotchenko, Jason J. Serpa, D. Hardie, M. Berjanskii +3 more
2012Molecular & Cellular Proteomics45 citations Open access
Semantic Scholar
Insight into the Structure of the "Unstructured" Tau Protein.
K. Popov, Karl A. T. Makepeace, E. Petrotchenko, N. Dokholyan +1 more
2019Structure44 citations Open access
Semantic Scholar
Protein Chemistry Combined with Mass Spectrometry for Protein Structure Determination.
E. Petrotchenko, C. Borchers
2021Chemical Reviews43 citations Open access
Semantic Scholar
Identification of binding sites for ivacaftor on the cystic fibrosis transmembrane conductance regulator
O. Laselva, Zafar Qureshi, Zhi W. Zeng, E. Petrotchenko +7 more
2021iScience42 citations Open access
Semantic Scholar
Top-Down Hydrogen-Deuterium Exchange Analysis of Protein Structures Using Ultraviolet Photodissociation.
Nicholas I. Brodie, R. Huguet, Terry Zhang, R. Viner +4 more
2018Analytical Chemistry41 citations
Semantic Scholar
Protein unfolding as a switch from self-recognition to high-affinity client binding
Bastian Groitl, S. Horowitz, Karl A. T. Makepeace, E. Petrotchenko +4 more
2016Nature Communications39 citations Open access
Semantic Scholar
The prolyl isomerase, FKBP25, interacts with RNA-engaged nucleolin and the pre-60S ribosomal subunit
Geoff Gudavicius, D. Dilworth, Jason J. Serpa, Nicole Sessler +3 more
2014RNA: A publication of the RNA Society31 citations Open access
Semantic Scholar
Use of a combination of isotopically coded cross-linkers and isotopically coded N-terminal modification reagents for selective identification of inter-peptide crosslinks.
E. Petrotchenko, Jason J. Serpa, C. Borchers
2010Analytical Chemistry31 citations
Semantic Scholar
Improving Identification of In-organello Protein-Protein Interactions Using an Affinity-enrichable, Isotopically Coded, and Mass Spectrometry-cleavable Chemical Crosslinker
Karl A. T. Makepeace, Yassene Mohammed, E. Rudashevskaya, E. Petrotchenko +4 more
2020Molecular & Cellular Proteomics30 citations Open access
Semantic Scholar
Combining fluorescence detection and mass spectrometric analysis for comprehensive and quantitative analysis of redox-sensitive cysteines in native membrane proteins.
E. Petrotchenko, D. Pasek, Phillip J. Elms, N. Dokholyan +2 more
2006Analytical Chemistry30 citations
Semantic Scholar
Pressure overload induces ISG15 to facilitate adverse ventricular remodeling and promote heart failure
Veera Ganesh Yerra, S. Batchu, H. Kaur, M. D. Golam Kabir +13 more
2023Journal of Clinical Investigation26 citations Open access
Semantic Scholar
Analysis of protein structure by cross-linking combined with mass spectrometry.
E. Petrotchenko, Karl A. T. Makepeace, Jason J. Serpa, C. Borchers
2014Methods in molecular biology23 citations
Semantic Scholar
DXMSMS Match Program for Automated Analysis of LC‐MS/MS Data Obtained Using Isotopically Coded CID‐Cleavable Cross‐Linking Reagents
E. Petrotchenko, Karl A. T. Makepeace, C. Borchers
2014Current Protocols in Bioinformatics22 citations
Semantic Scholar
Using multiple structural proteomics approaches for the characterization of prion proteins.
Jason J. Serpa, Aileen P Patterson, Jingxi Pan, Jun Han +3 more
2013Journal of Proteomics22 citations
Semantic Scholar
The novel isotopically coded short-range photo-reactive crosslinker 2,4,6-triazido-1,3,5-triazine (TATA) for studying protein structures.
Nicholas I. Brodie, E. Petrotchenko, C. Borchers
2016Journal of Proteomics21 citations
Semantic Scholar
Mass spectrometric analysis and mutagenesis predict involvement of multiple cysteines in redox regulation of the skeletal muscle ryanodine receptor ion channel complex
E. Petrotchenko, N. Yamaguchi, D. Pasek, C. Borchers +1 more
2011Research and Reports in Biology21 citations Open access
Semantic Scholar
(14)N(15)N DXMSMS Match program for the automated analysis of LC/ESI-MS/MS crosslinking data from experiments using (15)N metabolically labeled proteins.
E. Petrotchenko, Jason J. Serpa, Karl A. T. Makepeace, Nicholas I. Brodie +1 more
2014Journal of Proteomics17 citations
Semantic Scholar
The basic tilted helix bundle domain of the prolyl isomerase FKBP25 is a novel double-stranded RNA binding module
D. Dilworth, S. Upadhyay, P. Bonnafous, Amiirah Bibi Edoo +8 more
2017Nucleic Acids Research16 citations Open access
Semantic Scholar
Ligand-induced disorder-to-order transitions characterized by structural proteomics and molecular dynamics simulations
Karl A. T. Makepeace, Nicholas I. Brodie, K. Popov, Geoff Gudavicius +4 more
2019Journal of Proteomics14 citations Open access
Semantic Scholar
Modern mass spectrometry-based structural proteomics.
E. Petrotchenko, C. Borchers
2014Advances in Protein Chemistry and Structural Biology14 citations
Semantic Scholar
Using isotopically-coded hydrogen peroxide as a surface modification reagent for the structural characterization of prion protein aggregates.
Jason J. Serpa, Karl A. T. Makepeace, T. H. Borchers, D. Wishart +2 more
2014Journal of Proteomics12 citations
Semantic Scholar
Determination of Protein Monoclonal–Antibody Epitopes by a Combination of Structural Proteomics Methods
E. Petrotchenko, Elisabete M Nascimento, Jody Melton Witt, C. Borchers
2023Journal of Proteome Research11 citations Open access
Semantic Scholar
Structure of prion β‐oligomers as determined by short‐distance crosslinking constraint‐guided discrete molecular dynamics simulations
Jason J. Serpa, K. Popov, E. Petrotchenko, N. Dokholyan +1 more
2021Proteomics10 citations Open access
Semantic Scholar
Lipidomic Analysis of Plasma Extracellular Vesicles from Adiponectin Deficient Mice or Metabolic Syndrome Patients Reveals Pro‐Oxidative and Pro‐Inflammatory Lipid Signatures Correlating with Metabolic Dysfunction
Sungji Cho, H. Sung, Khang Nguyen, Yu-Bin Lei +10 more
2026Journal of Extracellular Vesicles8 citations Open access
Semantic Scholar
HDX Match Software for the Data Analysis of Top-Down ECD-FTMS Hydrogen/Deuterium Exchange Experiments
E. Petrotchenko, C. Borchers
2015Journal of the American Society for Mass Spectrometry8 citations Open access
Semantic Scholar
"Out-gel" tryptic digestion procedure for chemical cross-linking studies with mass spectrometric detection.
E. Petrotchenko, Jason J. Serpa, Ashley Cabecinha, M. Lesperance +1 more
2014Journal of Proteome Research8 citations
Semantic Scholar
Amino acid analysis for peptide quantitation using reversed-phase liquid chromatography combined with multiple reaction monitoring mass spectrometry
Deema O. Qasrawi, E. Petrotchenko, C. Borchers
2023Analytical and Bioanalytical Chemistry6 citations Open access
Semantic Scholar

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