Structural mechanisms for VMAT2 inhibition by tetrabenazine

Authors: Michael P Dalton, Mary Hongying Cheng, Ivet Bahar, Jonathan A Coleman

Source: eLife, Vol 12 (2024)

Subject Terms: membrane transport, neurotransmitters, small-molecule inhibitors, Medicine, Science, Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://elifesciences.org/articles/91973; https://doaj.org/toc/2050-084X

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Allosteric modulation of serotonin and dopamine transporters: New insights from computations and experiments

Authors: Hoang Nguyen, Mary Hongying Cheng, Ji Young Lee, Shaili Aggarwal, Ole Valente Mortensen, Ivet Bahar

Source: Current Research in Physiology, Vol 7, Iss , Pp 100125- (2024)

Subject Terms: Dopamine transporter, Serotonin transporter, Reuptake inhibitors, Allosteric modulators, Elastic network models, Ligand-binding sites, Physiology, QP1-981, Specialties of internal medicine, RC581-951

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Relation: http://www.sciencedirect.com/science/article/pii/S2665944124000099; https://doaj.org/toc/2665-9441

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Structural basis of G protein–Coupled receptor CMKLR1 activation and signaling induced by a chemerin-derived agonist

Authors: Xuan Zhang, Tina Weiß, Mary Hongying Cheng, Siqi Chen, Carla Katharina Ambrosius, Anne Sophie Czerniak, Kunpeng Li, Mingye Feng, Ivet Bahar, Annette G. Beck-Sickinger, Cheng Zhang

Source: PLoS Biology, Vol 21, Iss 12 (2023)

Subject Terms: Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10699647/?tool=EBI; https://doaj.org/toc/1544-9173; https://doaj.org/toc/1545-7885

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Portable fiber-based double nanohole optical tweezer for trapping small proteins

Authors: Veerpal Kaur, Demelza Wright, Samuel Mathew, Matthew Peters, Maria Zacharopoulou, Shang Hua Yang, Laura S Itzhaki, Ivet Bahar, Reuven Gordon

Source: JPhys Photonics, Vol 6, Iss 3, p 035023 (2024)

Subject Terms: optical trapping, proteins, single molecule analysis, Applied optics. Photonics, TA1501-1820, Optics. Light, QC350-467

File Description: electronic resource

Relation: https://doaj.org/toc/2515-7647

Access URL: https://doaj.org/article/b04ba492cd294334b1d0d580f7115d7e

Approximating deformation fields for the analysis of continuous heterogeneity of biological macromolecules by 3D Zernike polynomials

Authors: David Herreros, Roy R. Lederman, James Krieger, Amaya Jiménez-Moreno, Marta Martínez, David Myška, David Strelak, Jiri Filipovic, Ivet Bahar, Jose Maria Carazo, Carlos Oscar S. Sanchez

Source: IUCrJ, Vol 8, Iss 6, Pp 992-1005 (2021)

Subject Terms: multi-dimensional scaling (mds), 3d reconstruction and image processing, single-particle cryo-em, spherical harmonics, zernike polynomials, conformations, Crystallography, QD901-999

File Description: electronic resource

Relation: http://scripts.iucr.org/cgi-bin/paper?S2052252521008903; https://doaj.org/toc/2052-2525

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A systems‐level study reveals host‐targeted repurposable drugs against SARS‐CoV‐2 infection

Authors: Fangyuan Chen, Qingya Shi, Fen Pei, Andreas Vogt, Rebecca A Porritt, Gustavo Garcia, Angela C Gomez, Mary Hongying Cheng, Mark E Schurdak, Bing Liu, Stephen Y Chan, Vaithilingaraja Arumugaswami, Andrew M Stern, D Lansing Taylor, Moshe Arditi, Ivet Bahar

Source: Molecular Systems Biology, Vol 17, Iss 8, Pp 1-23 (2021)

Subject Terms: autophagy, SARS‐CoV‐2‐infected cell transcriptomics, syncytia formation, viral entry, viral–host interactions, Biology (General), QH301-705.5, Medicine (General), R5-920

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Relation: https://doaj.org/toc/1744-4292

Access URL: https://doaj.org/article/7db43c04a84b4afb9367c079ed650876

Potent and broad neutralization of SARS-CoV-2 variants of concern (VOCs) including omicron sub-lineages BA.1 and BA.2 by biparatopic human VH domains

Authors: Chuan Chen, James W. Saville, Michelle M. Marti, Alexandra Schäfer, Mary Hongying Cheng, Dhiraj Mannar, Xing Zhu, Alison M. Berezuk, Anupam Banerjee, Michele D. Sobolewski, Andrew Kim, Benjamin R. Treat, Priscila Mayrelle Da Silva Castanha, Nathan Enick, Kevin D. McCormick, Xianglei Liu, Cynthia Adams, Margaret Grace Hines, Zehua Sun, Weizao Chen, Jana L. Jacobs, Simon M. Barratt-Boyes, John W. Mellors, Ralph S. Baric, Ivet Bahar, Dimiter S. Dimitrov, Sriram Subramaniam, David R. Martinez, Wei Li

Source: iScience, Vol 25, Iss 8, Pp 104798- (2022)

Subject Terms: Immunology, Virology, Science

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2589004222010707; https://doaj.org/toc/2589-0042

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Multisystem Inflammatory Syndrome in Children and Long COVID: The SARS-CoV-2 Viral Superantigen Hypothesis

Authors: Magali Noval Rivas, Rebecca A. Porritt, Mary Hongying Cheng, Ivet Bahar, Moshe Arditi

Source: Frontiers in Immunology, Vol 13 (2022)

Subject Terms: SARS-CoV-2, superantigen, MIS-C multisystem inflammatory syndrome in children, long COVID, superantigen-like motif, neurotoxin-like segment, Immunologic diseases. Allergy, RC581-607

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fimmu.2022.941009/full; https://doaj.org/toc/1664-3224

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Coupled mixed model for joint genetic analysis of complex disorders with two independently collected data sets

Authors: Haohan Wang, Fen Pei, Michael M. Vanyukov, Ivet Bahar, Wei Wu, Eric P. Xing

Source: BMC Bioinformatics, Vol 22, Iss 1, Pp 1-14 (2021)

Subject Terms: Joint analysis, Mixed model, Deconfounding, Computer applications to medicine. Medical informatics, R858-859.7, Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://doaj.org/toc/1471-2105

Access URL: https://doaj.org/article/05f88af5de8346ee9b3ab5c68a330fd8

HiDeF: identifying persistent structures in multiscale ‘omics data

Authors: Fan Zheng, She Zhang, Christopher Churas, Dexter Pratt, Ivet Bahar, Trey Ideker

Source: Genome Biology, Vol 22, Iss 1, Pp 1-15 (2021)

Subject Terms: Systems biology, Multiscale, Persistent homology, Community detection, Resolution, Single-cell clustering, Biology (General), QH301-705.5, Genetics, QH426-470

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Relation: https://doaj.org/toc/1474-760X

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New insight into the significance of KLF4 PARylation in genome stability, carcinogenesis, and therapy

Authors: Zhuan Zhou, Furong Huang, Indira Shrivastava, Rui Zhu, Aiping Luo, Michael Hottiger, Ivet Bahar, Zhihua Liu, Massimo Cristofanilli, Yong Wan

Source: EMBO Molecular Medicine, Vol 12, Iss 12, Pp 1-27 (2020)

Subject Terms: DNA damage response, DNA repair, KLF4, PARP1, tumorigenesis and therapeutics, Medicine (General), R5-920, Genetics, QH426-470

File Description: electronic resource

Relation: https://doaj.org/toc/1757-4676; https://doaj.org/toc/1757-4684

Access URL: https://doaj.org/article/687e65add3b54ce99a500eeaf7575523

Elastic network modeling of cellular networks unveils sensor and effector genes that control information flow.

Authors: Omer Acar, She Zhang, Ivet Bahar, Anne-Ruxandra Carvunis

Source: PLoS Computational Biology, Vol 18, Iss 5, p e1010181 (2022)

Subject Terms: Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://doaj.org/toc/1553-734X; https://doaj.org/toc/1553-7358

Access URL: https://doaj.org/article/e6ef775ed58441d09c5fe111c03f1a9d

Inactivation of RIP3 kinase sensitizes to 15LOX/PEBP1-mediated ferroptotic death

Authors: Andrew M. Lamade, Limin Wu, Haider H. Dar, Heather L. Mentrup, Indira H. Shrivastava, Michael W. Epperly, Claudette M. St Croix, Yulia Y. Tyurina, Tamil S. Anthonymuthu, Qin Yang, Aleksandr A. Kapralov, Zhentai Huang, Gaowei Mao, Andrew A. Amoscato, Zachary E. Hier, Margarita A. Artyukhova, Galina Shurin, Joel C. Rosenbaum, Peter J. Gough, John Bertin, Andrew P. VanDemark, Simon C. Watkins, Kevin P. Mollen, Ivet Bahar, Joel S. Greenberger, Valerian E. Kagan, Michael J. Whalen, Hülya Bayır

Source: Redox Biology, Vol 50, Iss , Pp 102232- (2022)

Subject Terms: Lipid signaling, Whole body irradiation, Traumatic brain injury, Regulated necrosis, Necroptotic death, Ferroptotic death, Medicine (General), R5-920, Biology (General), QH301-705.5

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2213231722000040; https://doaj.org/toc/2213-2317

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Editorial: Targeting Membrane Proteins: Structure-Function-Dynamics Relationships

Authors: Claire Colas, Ivet Bahar, Lei Shi, Josep Font Sadurni

Source: Frontiers in Chemistry, Vol 10 (2022)

Subject Terms: membrane proteins, drug targets, structure, function, dynamics, Chemistry, QD1-999

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fchem.2022.862802/full; https://doaj.org/toc/2296-2646

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Impact of new variants on SARS-CoV-2 infectivity and neutralization: A molecular assessment of the alterations in the spike-host protein interactions

Authors: Mary Hongying Cheng, James M. Krieger, Anupam Banerjee, Yufei Xiang, Burak Kaynak, Yi Shi, Moshe Arditi, Ivet Bahar

Source: iScience, Vol 25, Iss 3, Pp 103939- (2022)

Subject Terms: Biological sciences, Virology, Structural biology, Science

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2589004222002097; https://doaj.org/toc/2589-0042

Access URL: https://doaj.org/article/688a6897c7d64964a3a8048ce0437b13

Sampling of Protein Conformational Space Using Hybrid Simulations: A Critical Assessment of Recent Methods

Authors: Burak T. Kaynak, James M. Krieger, Balint Dudas, Zakaria L. Dahmani, Mauricio G. S. Costa, Erika Balog, Ana Ligia Scott, Pemra Doruker, David Perahia, Ivet Bahar

Source: Frontiers in Molecular Biosciences, Vol 9 (2022)

Subject Terms: conformational landscape/space, normal mode analysis, molecular simulations, elastic network models, HIV-1 protease, triosephosphate isomerase, Biology (General), QH301-705.5

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Relation: https://www.frontiersin.org/articles/10.3389/fmolb.2022.832847/full; https://doaj.org/toc/2296-889X

Access URL: https://doaj.org/article/902b2f3af6304360bc36b423da15694c

Bile Acids Gate Dopamine Transporter Mediated Currents

Authors: Tiziana Romanazzi, Daniele Zanella, Mary Hongying Cheng, Behrgen Smith, Angela M. Carter, Aurelio Galli, Ivet Bahar, Elena Bossi

Source: Frontiers in Chemistry, Vol 9 (2021)

Subject Terms: bile acid, dopamine, monoamines, transporters, SLC6, electrophysiology, Chemistry, QD1-999

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fchem.2021.753990/full; https://doaj.org/toc/2296-2646

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Regulation of CFTR Bicarbonate Channel Activity by WNK1: Implications for Pancreatitis and CFTR-Related DisordersSummary

Authors: Yonjung Kim, Ikhyun Jun, Dong Hoon Shin, Jihoon G. Yoon, He Piao, Jinsei Jung, Hyun Woo Park, Mary Hongying Cheng, Ivet Bahar, David C. Whitcomb, Min Goo Lee

Source: Cellular and Molecular Gastroenterology and Hepatology, Vol 9, Iss 1, Pp 79-103 (2020)

Subject Terms: Diseases of the digestive system. Gastroenterology, RC799-869

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Relation: http://www.sciencedirect.com/science/article/pii/S2352345X19301213; https://doaj.org/toc/2352-345X

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Essential site scanning analysis: A new approach for detecting sites that modulate the dispersion of protein global motions

Authors: Burak T. Kaynak, Ivet Bahar, Pemra Doruker

Source: Computational and Structural Biotechnology Journal, Vol 18, Iss , Pp 1577-1586 (2020)

Subject Terms: Elastic network model, Functional dynamics, Essential sites, Allostery, Druggability, Protein–ligand interaction, Biotechnology, TP248.13-248.65

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2001037020303093; https://doaj.org/toc/2001-0370

Access URL: https://doaj.org/article/be05410b332a4156ad0045ff06a18975

A novel strategy to block mitotic progression for targeted therapyResarch in context

Authors: Junlong (Jack) Chi, Hongchun Li, Zhuan Zhou, Javier Izquierdo-Ferrer, Yifan Xue, Cindy M. Wavelet, Gary E. Schiltz, Bin Zhang, Massimo Cristofanilli, Xinghua Lu, Ivet Bahar, Yong Wan

Source: EBioMedicine, Vol 49, Iss , Pp 40-54 (2019)

Subject Terms: Medicine, Medicine (General), R5-920

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2352396419306772; https://doaj.org/toc/2352-3964

Access URL: https://doaj.org/article/a6255bb2824e42abb8ba7e36219e69bc