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S. Tsutakawa · SciRah

Researcher profile · Semantic Scholar

S. Tsutakawa

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S. Tsutakawa — researcher profile on SciRah

h-index: 36
Works: 123
Citations: 4,296

Most-cited papers

Human Flap Endonuclease Structures, DNA Double Base Flipping and a Unified Understanding of the FEN1 Superfamily
S. Tsutakawa, S. Classen, B. Chapados, A. Arvai +9 more
2011Cell303 citations Open access
Semantic Scholar
Exploring the repeat protein universe through computational protein design
T. Brunette, F. Parmeggiani, Po-Ssu Huang, G. Bhabha +5 more
2015Nature268 citations Open access
Semantic Scholar
Mechanism and Regulation of DNA-Protein Crosslink Repair by the DNA-Dependent Metalloprotease SPRTN
J. Stingele, R. Bellelli, F. Alte, G. Hewitt +9 more
2016Molecules and Cells218 citations Open access
Semantic Scholar
High-Throughput SAXS for the Characterization of Biomolecules in Solution: A Practical Approach
Kevin N Dyer, M. Hammel, R. Rambo, S. Tsutakawa +4 more
2014Methods in molecular biology194 citations Open access
Semantic Scholar
Phosphate steering by Flap Endonuclease 1 promotes 5′-flap specificity and incision to prevent genome instability
S. Tsutakawa, Mark J. Thompson, A. Arvai, Alexander J. Neil +13 more
2017Nature Communications108 citations Open access
Semantic Scholar
A new structural framework for integrating replication protein A into DNA processing machinery
C. Brosey, C. Yan, S. Tsutakawa, W. Heller +4 more
2013Nucleic Acids Research98 citations Open access
Semantic Scholar
The cutting edges in DNA repair, licensing, and fidelity: DNA and RNA repair nucleases sculpt DNA to measure twice, cut once
S. Tsutakawa, J. Lafrance-Vanasse, J. Tainer
2014DNA Repair96 citations Open access
Semantic Scholar
Conserved Structural Chemistry for Incision Activity in Structurally Non-homologous Apurinic/Apyrimidinic Endonuclease APE1 and Endonuclease IV DNA Repair Enzymes*
S. Tsutakawa, D. S. Shin, C. Mol, T. Izumi +12 more
2013Journal of Biological Chemistry90 citations Open access
Semantic Scholar
Dissection of DNA double-strand break repair using novel single-molecule forceps
Jing L Wang, C. Duboc, Qian Wu, T. Ochi +7 more
2018Nature Structural & Molecular Biology88 citations Open access
Semantic Scholar
Transcription preinitiation complex structure and dynamics provide insight into genetic diseases
C. Yan, T. Dodd, Yuan He, J. Tainer +2 more
2019Nature Structural & Molecular Biology71 citations Open access
Semantic Scholar
Solution X-ray scattering combined with computational modeling reveals multiple conformations of covalently bound ubiquitin on PCNA
S. Tsutakawa, Adam W. van Wynsberghe, B. Freudenthal, Christopher P Weinacht +5 more
2011Proceedings of the National Academy of Sciences of the United States of America66 citations Open access
Semantic Scholar
Unpairing and gating substrate duplex ends enforces FEN superfamily specificity
J. Grasby, L. Finger, S. Tsutakawa, John M. Atack +1 more
2011TIBS -Trends in Biochemical Sciences. Regular ed64 citations Open access
Semantic Scholar
The Wonders of Flap Endonucleases: Structure, Function, Mechanism and Regulation
L. Finger, John M. Atack, S. Tsutakawa, S. Classen +3 more
2012Sub-cellular biochemistry59 citations Open access
Semantic Scholar
Human XPG nuclease structure, assembly, and activities with insights for neurodegeneration and cancer from pathogenic mutations
S. Tsutakawa, Altaf H. Sarker, Cliff Ng, A. Arvai +15 more
2020Proceedings of the National Academy of Sciences of the United States of America55 citations Open access
Semantic Scholar
Uncovering DNA-PKcs ancient phylogeny, unique sequence motifs and insights for human disease
J. Lees-Miller, Alexander Cobban, Panagiotis Katsonis, A. Bacolla +7 more
2020Progress in Biophysics and Molecular Biology53 citations Open access
Semantic Scholar
Envisioning how the prototypic molecular machine TFIIH functions in transcription initiation and DNA repair
S. Tsutakawa, Chi-Lin Tsai, C. Yan, Amer Bralić +5 more
2020DNA Repair52 citations Open access
Semantic Scholar
Efficient production of oxidized terpenoids via engineering fusion proteins of terpene synthase and cytochrome P450
Xi Wang, J. H. Pereira, S. Tsutakawa, Xin-Yue Fang +3 more
2021Metabolic Engineering49 citations Open access
Semantic Scholar
The Disordered C-Terminal Domain of Human DNA Glycosylase NEIL1 Contributes to Its Stability via Intramolecular Interactions
M. Hegde, S. Tsutakawa, P. M. Hegde, L. M. Holthauzen +5 more
2013Journal of Molecular Biology48 citations Open access
Semantic Scholar
Repair complexes of FEN1 endonuclease, DNA, and Rad9-Hus1-Rad1 are distinguished from their PCNA counterparts by functionally important stability
Jordi Querol-Audí, C. Yan, Xiaojun Xu, S. Tsutakawa +5 more
2012Proceedings of the National Academy of Sciences of the United States of America48 citations Open access
Semantic Scholar
Flap endonucleases pass 5′-flaps through a flexible arch using a disorder-thread-order mechanism to confer specificity for free 5′-ends
N. Patel, John M. Atack, L. Finger, J. Exell +5 more
2012Nucleic Acids Research44 citations Open access
Semantic Scholar
STRUCTURALLY DISTINCT UBIQUITIN- AND SUMO-MODIFIED PCNA: IMPLICATIONS FOR THEIR DISTINCT ROLES IN THE DNA DAMAGE RESPONSE
S. Tsutakawa, C. Yan, Xiaojun Xu, Christopher P Weinacht +6 more
2015Structure43 citations Open access
Semantic Scholar
Transient and stabilized complexes of Nsp7, Nsp8, and Nsp12 in SARS-CoV-2 replication
M. Wilamowski, M. Hammel, W. Leite, Qiu Zhang +14 more
2021Biophysical Journal41 citations Open access
Semantic Scholar
Structural dynamics and ssDNA binding activity of the three N-terminal domains of the large subunit of Replication Protein A from small angle X-ray scattering
Dalyir I. Pretto, S. Tsutakawa, C. Brosey, A. Castillo +4 more
2010Biochemistry40 citations Open access
Semantic Scholar
EXO5-DNA Structure and BLM Interactions Direct DNA Resection Critical for ATR-dependent Replication Restart
Shashank Hambarde, Chi-Lin Tsai, R. Pandita, A. Bacolla +12 more
2021Molecules and Cells39 citations Open access
Semantic Scholar
Structural mimicry in transcription regulation of human RNA polymerase II by the DNA helicase RECQL5
S. Kassube, M. Jinek, Jie Fang, S. Tsutakawa +1 more
2013Nature Structural &Molecular Biology39 citations Open access
Semantic Scholar
Mapping interactions between the RNA chaperone FinO and its RNA targets
David C. Arthur, R. A. Edwards, S. Tsutakawa, J. Tainer +2 more
2011Nucleic Acids Research38 citations Open access
Semantic Scholar
A scanning-to-incision switch in TFIIH-XPG induced by DNA damage licenses nucleotide excision repair
Amer Bralić, Muhammad Tehseen, M. A. Sobhy, Chi-Lin Tsai +8 more
2022Nucleic Acids Research37 citations Open access
Semantic Scholar
Single-molecule FRET unveils induced-fit mechanism for substrate selectivity in flap endonuclease 1
Fahad Rashid, P. D. Harris, Manal S. Zaher, M. A. Sobhy +8 more
2017eLife36 citations Open access
Semantic Scholar
Target highlights in CASP14: analysis of models by structure providers
L. Alexander, R. Lepore, A. Kryshtafovych, A. Adamopoulos +34 more
2021Proteins: Structure, Function, and Bioinformatics29 citations Open access
Semantic Scholar
Small angle X-ray scattering-assisted protein structure prediction in CASP13 and emergence of solution structure differences
G. Hura, C. D. Hodge, D. Rosenberg, D. Guzenko +7 more
2019Proteins: Structure, Function, and Bioinformatics28 citations Open access
Semantic Scholar
Small angle X-ray scattering and cross-linking for data assisted protein structure prediction in CASP 12 with prospects for improved accuracy
Tadeusz L. Ogorzalek, G. Hura, Adam Belsom, Kathryn H Burnett +5 more
2018Proteins: Structure, Function, and Bioinformatics26 citations Open access
Semantic Scholar
Molecular architecture and functional dynamics of the pre-incision complex in nucleotide excision repair
Ji-Na Yu, Chunli Yan, Tanmoy Paul, L. Brewer +5 more
2024Nature Communications22 citations Open access
Semantic Scholar
Strengthening of enterococcal biofilms by Esp
L. Spiegelman, A. Bahn-Suh, Elizabeth T. Montaño, Ling Zhang +7 more
2022bioRxiv22 citations Open access
Semantic Scholar
Double strand binding – single strand incision mechanism for human flap endonuclease: implications for the superfamily
S. Tsutakawa, J. Tainer
2012Mechanisms of Ageing and Development22 citations Open access
Semantic Scholar
Predicting pose distribution of protein domains connected by flexible linkers is an unsolved problem
Allen C. McBride, Feng Yu, Edward H. Cheng, Aulane Mpouli +6 more
2025bioRxiv20 citations
Semantic Scholar
Dynamic conformational switching underlies TFIIH function in transcription and DNA repair and impacts genetic diseases
Ji-Na Yu, Chunli Yan, T. Dodd, Chi-Lin Tsai +3 more
2023Nature Communications19 citations Open access
Semantic Scholar
Applying Small Angle X-Ray Scattering (SAXS) To Protein Structure Predictions To Characterize Conformations In Solution
Nagapradeep Chinnam, Aleem Syed, G. Hura, M. Hammel +2 more
2022Methods in Enzymology18 citations Open access
Semantic Scholar
The structural basis for the functional comparability of Factor VIII and the long-acting variant recombinant Factor VIII Fc fusion protein
N. C. Leksa, P.-L. Chiu, G. M. Bou-Assaf, C. Quan +8 more
2017Journal of Thrombosis and Haemostasis16 citations Open access
Semantic Scholar
Conformational Dynamics in the Interaction of SARS-CoV-2 Papain-like Protease with Human Interferon-Stimulated Gene 15 Protein
W. Leite, K. Weiss, Gwyndalyn Phillips, Qiu Zhang +4 more
2021Journal of Physical Chemistry Letters15 citations Open access
Semantic Scholar
Structural and Biochemical Characterization of Human PR70 in Isolation and in Complex with the Scaffolding Subunit of Protein Phosphatase 2A
R. Dovega, S. Tsutakawa, E. M. Quistgaard, M. Anandapadamanaban +2 more
2014PLoS ONE15 citations Open access
Semantic Scholar
Decoding Cancer Variants of Unknown Significance for Helicase–Nuclease–RPA Complexes Orchestrating DNA Repair During Transcription and Replication
S. Tsutakawa, A. Bacolla, Panagiotis Katsonis, Amer Bralić +4 more
2021Frontiers in Molecular Biosciences14 citations Open access
Semantic Scholar
The role of XPB/Ssl2 dsDNA translocation processivity in transcription-start-site scanning.
Eric J. Tomko, Olivia Luyties, Jenna K. Rimel, Chi-Lin Tsai +6 more
2020bioRxiv12 citations Open access
Semantic Scholar
Molecular model of TFIIH recruitment to the transcription-coupled repair machinery
Tanmoy Paul, Chunli Yan, Ji-Na Yu, S. Tsutakawa +3 more
2025Nature Communications10 citations Open access
Semantic Scholar
An efficient chemical screening method for structure-based inhibitors to nucleic acid enzymes targeting the DNA repair-replication interface and SARS CoV-2
D. Moiani, T. Link, C. Brosey, Panagiotis Katsonis +9 more
2021Methods in Enzymology7 citations Open access
Semantic Scholar
ASCC1 structures and bioinformatics reveal a novel helix-clasp-helix RNA-binding motif linked to a two-histidine phosphodiesterase
Naga Babu Chinnam, R. Thapar, A. Arvai, Altaf H. Sarker +15 more
2024Journal of Biological Chemistry6 citations Open access
Semantic Scholar
The NS1 protein of influenza B virus binds 5’-triphosphorylated dsRNA to suppress RIG-I activation and the host antiviral response
Ryan L. Woltz, Brandon D Schweibenz, S. Tsutakawa, Chen Zhao +11 more
2024bioRxiv5 citations Open access
Semantic Scholar
Structural dynamics and ssDNA binding activity of the three N-terminal domains of the large subunit of Replication Protein A from small angle X-ray scattering
Dalyir I. Pretto, S. Tsutakawa, C. Brosey, A. Castillo +5 more
20104 citations
Semantic Scholar
Structural basis for the role of C-terminus acidic tail of Saccharomyces cerevisiae ubiquitin-conjugating enzyme (Rad6) in E3 ligase (Bre1) mediated recognition of histones.
Pawan Yadav, Manish Gupta, Rushna Wazahat, Z. Islam +3 more
2023International Journal of Biological Macromolecules3 citations Open access
Semantic Scholar
Identification of unique α4 chain structure and conserved anti-angiogenic activity of α3NC1 type IV collagen in zebrafish
V. LeBleu, Jianli Dai, S. Tsutakawa, B. Macdonald +7 more
2023bioRxiv3 citations Open access
Semantic Scholar
Breaking the rules: protein sculpting in NEIL2 regulation
S. Tsutakawa, Altaf H. Sarker
2021Structure3 citations Open access
Semantic Scholar

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