10.3389/fimmu.2018.03102

Plumbagin Ameliorates Collagen-Induced Arthritis by Regulating Treg/Th17 Cell Imbalances and Suppressing Osteoclastogenesis
Cited by: 12
Author(s): Tingyu Wang, Han Qiao, Zanjing Zhai, Jun Zhang, Jianwei Tu, Xinyi Zheng, Nan Qian, Hong Zhou, Eryi Lu, Tingting Tang
Software Mentions: 2
Published: almost 7 years ago

10.3389/fimmu.2021.662909

Sequence-Signature Optimization Enables Improved Identification of Human HV6-1-Derived Class Antibodies That Neutralize Diverse Influenza A Viruses
Cited by: 0
Author(s): Gwo-Yu Chuang, Chen‐Hsiang Shen, Catherine Cheung, Jason Gorman, Adrian Creanga, Michael Joyce, Kwanyee Leung, Reda Rawi, Lingshu Wang, Eun Sung Yang, Yongping Yang, Baoshan Zhang, Yi Zhang, Masaru Kanekiyo, Tongqing Zhou, Brandon J. DeKosky, Barney S. Graham, John R. Mascola, Peter D. Kwong
Software Mentions: 2
Published: over 4 years ago

10.3389/fimmu.2019.02698

In silico Design of an Epitope-Based Vaccine Ensemble for Chagas Disease
Cited by: 38
Author(s): Lucas Michel-Todó, Pedro A. Reche, Pascal Bigey, María Jesús Pinazo, Joaquím Gascón, Julio Alonso-Padilla
Software Mentions: 2
Published: almost 6 years ago

10.3389/fimmu.2020.01529

The Effects of Framework Mutations at the Variable Domain Interface on Antibody Affinity Maturation in an HIV-1 Broadly Neutralizing Antibody Lineage
Cited by: 11
Author(s): Jeffrey Zhou, Hussain Zaidi, Therese Ton, Daniela Fera
Software Mentions: 2
Published: over 5 years ago

10.3389/fimmu.2021.621153

Structural Comparison Between MHC Classes I and II; in Evolution, a Class-II-Like Molecule Probably Came First
Cited by: 16
Author(s): Yanan Wu, Nianzhi Zhang, Keiichiro Hashimoto, Chun Xia, Johannes M. Dijkstra
Software Mentions: 2
Published: over 4 years ago

10.3390/genes12091345

Three ParA Dimers Cooperatively Assemble on Type Ia Partition Promoters
Cited by: 3
Author(s): François Boudsocq, Maya Salhi, Sophie Barbe, Jean‐Yves Bouet
Software Mentions: 2
Published: about 4 years ago

10.1038/s41435-020-00120-6

Evolutionary and structural analysis of SARS-CoV-2 specific evasion of host immunity
Cited by: 35
Author(s): Irfan Hussain, Nashaiman Pervaiz, Abbas Khan, Shoaib Saleem, Huma Shireen, Dong‐Qing Wei, Viviane Labrie, Yīmíng Bào, Amir Ali Abbasi
Software Mentions: 2
Published: almost 5 years ago

10.1038/s41436-021-01134-9

Computational prediction of protein subdomain stability in MYBPC3 enables clinical risk stratification in hypertrophic cardiomyopathy and enhances variant interpretation
Cited by: 8
Author(s): Andrea D. Thompson, Adam S. Helms, Anamika Kannan, Jaime Yob, Neal K. Lakdawala, Samuel G. Wittekind, Alexandre C. Pereira, Daniel Jacoby, Steven D. Colan, Euan A. Ashley, Sara Saberi, James S. Ware, Jodie Ingles, Christopher Semsarian, Michelle Michels, Francesco Mazzarotto, Iacopo Olivotto, Carolyn Y. Ho, Sharlene M. Day
Software Mentions: 2
Published: over 4 years ago

10.1590/1678-4685-GMB-2020-0393

Structural analysis of new compound heterozygous variants in PEPD gene identified in a patient with Prolidase Deficiency diagnosed by exome sequencing
Cited by: 1
Author(s): Natália Duarte Linhares, P. Wilk, E. Wator, Meire A. Tostes, M.S. Weiss, Sérgio D.J. Pena
Software Mentions: 2
Published: almost 5 years ago

10.1017/S0016672319000065

In trans variant calling reveals enrichment for compound heterozygous variants in genes involved in neuronal development and growth.
Cited by: 2
Author(s): Allison Cox, Fillan Grady, Gabriel Vélez, Vinit B. Mahajan, Polly J. Ferguson, Andrew Kitchen, Benjamin W. Darbro, Alexander G. Bassuk
Software Mentions: 2
Published: almost 7 years ago

10.1186/gb-2008-9-8-r121

Proteopedia - a scientific 'wiki' bridging the rift between 3D structure and function of biomacromolecules
Cited by: 86
Author(s): Eran Hodis, Jaime Prilusky, Eric Martz, Israel Silman, John Moult, Joel L. Sussman
Software Mentions: 2
Published: almost 18 years ago

10.1093/gbe/evz266

Evolutionary History of the Toll-Like Receptor Gene Family across Vertebrates
Cited by: 64
Author(s): Guangshuai Liu, Huanxin Zhang, Chao Zhao, Honghai Zhang
Software Mentions: 2
Published: almost 6 years ago

10.1016/j.gpb.2017.03.004

Paralog-divergent Features May Help Reduce Off-target Effects of Drugs: Hints from Glucagon Subfamily Analysis
Cited by: 1
Author(s): Zhining Sa, Jingqi Zhou, Yangyun Zou, Zhixi Su, Xun Gu
Software Mentions: 2
Published: over 8 years ago

10.1093/gigascience/gix093

Panax ginseng genome examination for ginsenoside biosynthesis
Cited by: 123
Author(s): Jiang Xu, Yang Chu, Baosheng Liao, Shaobo Xiao, Qinggang Yin, Rui Bai, He Su, Lixin Dong, Xiwen Li, Jun Qian, Jingjing Zhang, Yujun Zhang, Xiaoyan Zhang, Mingli Wu, Jie Zhang, Guozheng Li, Lei Zhang, Zhenzhan Chang, Yuebin Zhang, Zhengwei Jia, Zhixiang Liu, Daniel Ntiamoah Afreh, Ruth Nahurira, Lianjuan Zhang, Ruiyang Cheng, Yingjie Zhu, Guangwei Zhu, Wei Rao, Chao Zhou, Lin Qiao, Zhixing Huang, Yung Chi Cheng, Shilin Chen
Software Mentions: 2
Published: about 8 years ago

10.1038/s41438-021-00467-5

Functional conservation of the grapevine candidate gene INNER NO OUTER for ovule development and seed formation
Cited by: 12
Author(s): Valentina di Rienzo, Zahra Imanifard, Isabella Mascio, Charles S. Gasser, Debra J. Skinner, Ciro Leonardo Pierri, Martina Marini, Valentina Fanelli, Wilma Sabetta, Cinzia Montemurro, Diana Bellin
Software Mentions: 2
Published: almost 5 years ago

10.1016/j.immuni.2020.02.014

Butyrophilin-2A1 Directly Binds Germline-Encoded Regions of the Vγ9Vδ2 TCR and Is Essential for Phosphoantigen Sensing
Cited by: 144
Author(s): Mohindar Murugesh Karunakaran, Carrie R. Willcox, Mahboob Salim, Daniel Paletta, Alina Suzann Fichtner, Angela Noll, Lisa Starick, Anna Nöhren, Charlotte R Begley, Katie A Berwick, Raphaël A. G. Chaleil, Vincent Pitard, Julie Déchanet‐Merville, Paul A. Bates, Brigitte Kimmel, Timothy J. Knowles, Volker Kunzmann, Lutz Walter, Mark Jeeves, Fiyaz Mohammed, Benjamin E. Willcox, Thomas Herrmann
Software Mentions: 2
Published: over 5 years ago

10.1007/s00251-019-01118-9

Conservation of molecular and cellular phenotypes of invariant NKT cells between humans and non-human primates
Cited by: 8
Author(s): Krystle K. Q. Yu, Damien B. Wilburn, Joshua A. Hackney, Patricia A. Darrah, Kathryn E. Foulds, Cyan James, Malisa T. Smith, Lichen Jing, Robert A. Seder, Mario Roederer, David M. Koelle, Willie J. Swanson, Chetan Seshadri
Software Mentions: 2
Published: over 6 years ago

10.1186/s40203-015-0014-1

Molecular docking studies on InhA, MabA and PanK enzymes from Mycobacterium tuberculosis of ellagic acid derivatives from Ludwigia adscendens and Trewia nudiflora
Cited by: 13
Author(s): Jamil A. Shilpi, Mohammad Tuhin Ali, Sanjib Saha, Shihab Hasan, Alexander I. Gray, Véronique Seidel
Software Mentions: 2
Published: almost 10 years ago

10.1186/s40203-016-0020-y

In silico proposition to predict cluster of B- and T-cell epitopes for the usefulness of vaccine design from invasive, virulent and membrane associated proteins of C. jejuni
Cited by: 20
Author(s): Tahirah Yasmin, Salma Akter, Mouly Debnath, Akio Ebihara, Tsutomu Nakagawa, A.H.M. Nurun Nabi
Software Mentions: 2
Published: over 9 years ago

10.1111/1744-7917.12564

Comparative analysis of C‐type lectin domain proteins in the ghost moth, <i>Thitarodes xiaojinensis</i> (Lepidoptera: Hepialidae)
Cited by: 18
Author(s): Qian Meng, Ji‐Hong Zhang, Huan Zhang, Guiling Zhou, Ruoyao Ni, Yanni Zhao, Qilian Qin, Zhen Zou
Software Mentions: 2
Published: over 7 years ago

10.3390/insects12090814

Hermetia illucens (L.) (Diptera: Stratiomyidae) Odorant Binding Proteins and Their Interactions with Selected Volatile Organic Compounds: An In Silico Approach
Cited by: 24
Author(s): Carmen Scieuzo, Marisa Nardiello, Donatella Farina, Andrea Scala, Jonathan A. Cammack, Jeffery K. Tomberlin, Heiko Vogel, Rosanna Salvia, Krishna Persaud, Patrizia Falabella
Software Mentions: 2
Published: about 4 years ago

10.3390/insects12090827

Identification of Core Genes of Toll-like Receptor Pathway from Lymantria dispar and Induced Expression upon Immune Stimulant
Cited by: 3
Author(s): Long Liu, Yu‐Shan Wei, Dun Wang
Software Mentions: 2
Published: about 4 years ago

10.1172/jci.insight.135459

Intrahepatic heteropolymerization of M and Z alpha-1-antitrypsin
Cited by: 13
Author(s): Mattia Laffranchi, Emma Elliston, Elena Miranda, Juan Pérez, Riccardo Ronzoni, Alistair M. Jagger, Nina Heyer-Chauhan, Mark Brantly, Annamaria Fra, David A. Lomas, James A. Irving
Software Mentions: 2
Published: over 5 years ago

10.4172/2155-6148.1000218

Human μ Opioid Receptor Models with Evaluation of the Accuracy Using the Crystal Structure of the Murine μ Opioid Receptor
Cited by: 3
Author(s): Jose Manuel Perez‐Aguilar, Jeffery G. Saven, Renyu Liu
Software Mentions: 2
Published: almost 14 years ago

10.1186/s40104-018-0260-2

Molecular characterization and expression patterns of Nanog gene validating its involvement in the embryonic development and maintenance of spermatogonial stem cells of farmed carp, Labeo rohita
Cited by: 14
Author(s): Swagat Kumar Patra, Vemulawada Chakrapani, Meenati Manjari Soren, Jitendra Kumar Sundaray, Manoj Panda, Hirak Kumar Barman
Software Mentions: 2
Published: over 7 years ago

10.1107/S1600576715024942

Extension of the sasCIF format and its applications for data processing and deposition
Cited by: 17
Author(s): Michael Kachala, John D. Westbrook, Dmitri I. Svergun
Software Mentions: 2
Published: almost 10 years ago

10.1074/jbc.M113.480657

Ca2+-dependent Structural Changes in the B-cell Receptor CD23 Increase Its Affinity for Human Immunoglobulin E
Cited by: 27
Author(s): Daopeng Yuan, Anthony H. Keeble, Richard G. Hibbert, Stella M. Fabiane, Hannah J. Gould, James M. McDonnell, Andrew J. Beavil, Brian J. Sutton, B. Dhaliwal
Software Mentions: 2
Published: over 12 years ago

10.1074/jbc.M113.454496

Mechanism of Ferrous Iron Binding and Oxidation by Ferritin from a Pennate Diatom
Cited by: 53
Author(s): Stephanie Pfaffen, Raz Abdulqadir, Nick E. Le Brun, M.E.P. Murphy
Software Mentions: 2
Published: over 12 years ago

10.1074/jbc.M113.491415

Conformational Plasticity and Ligand Binding of Bacterial Monoacylglycerol Lipase
Cited by: 39
Author(s): Srinivasan Rengachari, P. Aschauer, Matthias Schittmayer, Nicole Mayer, Karl Gruber, Rolf Breinbauer, Ruth Birner‐Gruenberger, Ingrid Dreveny, Monika Oberer
Software Mentions: 2
Published: about 12 years ago

10.1074/jbc.M113.534628

Crystal Structures of Leukotriene C4 Synthase in Complex with Product Analogs
Cited by: 22
Author(s): Damian Niegowski, Thea K. Kleinschmidt, Ulrika Olsson, Shabbir Ahmad, Agnes Rinaldo-Matthis, Jesper Z. Haeggström
Software Mentions: 2
Published: almost 12 years ago

10.1186/s12929-018-0444-2

CHAT gene polymorphism rs3810950 is associated with the risk of Alzheimer’s disease in the Czech population
Cited by: 10
Author(s): Alice Hálová, Jana Janoutová, Laura Ewerlingová, Vladimí­r Janout, Ondřej Bonczek, Tomáš Zeman, Tereza Gerguri, Vladimír J. Balcar, Omar Šerý
Software Mentions: 2
Published: over 7 years ago

10.1186/s12929-019-0589-7

Structural basis of polyethylene glycol recognition by antibody
Cited by: 27
Author(s): Cheng Chung Lee, Yu-Cheng Su, Tzu Ping Ko, Li-Hung Lin, Chih Ya Yang, Shu‐Wen Chang, Steve R. Roffler, Andrew H.‐J. Wang
Software Mentions: 2
Published: almost 6 years ago

10.1007/s10858-015-9933-8

NMRFAM-SDF: a protein structure determination framework
Cited by: 4
Author(s): Hesam Dashti, Woonghee Lee, Marco Tonelli, Claudia C. Cornilescu, Gabriel Cornilescu, Fariba M. Assadi‐Porter, William M. Westler, Hamid R. Eghbalnia, John L. Markley
Software Mentions: 2
Published: over 10 years ago

10.1007/s10858-019-00247-3

Characterization of H/D exchange in type 1 pili by proton-detected solid-state NMR and molecular dynamics simulations
Cited by: 4
Author(s): Songhwan Hwang, Carl Öster, Veniamin Chevelkov, Karin Giller, Adam Lange, Stefan Becker, Adam Lange
Software Mentions: 2
Published: over 6 years ago

10.1007/s10858-016-0029-x

Integrative NMR for biomolecular research
Cited by: 43
Author(s): Woonghee Lee, Gabriel Cornilescu, Hesam Dashti, Hamid R. Eghbalnia, Marco Tonelli, William M. Westler, Samuel E. Butcher, Katherine Henzler‐Wildman, John L. Markley
Software Mentions: 2
Published: over 9 years ago

10.1007/s10858-021-00365-x

A COVID moonshot: assessment of ligand binding to the SARS-CoV-2 main protease by saturation transfer difference NMR spectroscopy
Cited by: 9
Author(s): A.L. Kantsadi, Emma Cattermole, Minos‐Timotheos Matsoukas, Georgios A. Spyroulias, Ioannis Vakonakis
Software Mentions: 2
Published: over 4 years ago

10.1155/2016/8683713

Structural Stability, Transitions, and Interactions within SoxYZCD-Thiosulphate from Sulfurimonas denitrificans: An In Silico Molecular Outlook for Maintaining Environmental Sulphur Cycle
Cited by: 1
Author(s): Sujay Ray, Arundhati Banerjee
Software Mentions: 2
Published: about 9 years ago

10.34172/jcvtr.2020.02

Novel single nucleotide mutations in exon-10 of human coagulationFactor V gene in patients with pulmonary thromboembolism
Cited by: 1
Author(s): Latheef Kasala, D. Rajasekhar, V. Vanajakshamma
Software Mentions: 2
Published: almost 6 years ago

10.1083/jcb.201910059

Molecular basis of MKLP2-dependent Aurora B transport from chromatin to the anaphase central spindle
Cited by: 23
Author(s): Michela Serena, Ricardo Bastos, P.R. Elliott, Francis A. Barr
Software Mentions: 2
Published: over 5 years ago

10.1111/jcmm.13547

Humanization of fibroblast growth factor 1 single‐chain antibody and validation for its antitumorigenic efficacy in breast cancer and glioma cells
Cited by: 11
Author(s): Xiaomin He, Shuyuan Du, Shiqian Gao, Jing‐Ying Chen, Ran‐Juan Cao, Zhenkai Xing, Alia Rizvi Syeda Kazim, Huali Yu, Qing‐Chuan Zheng, Xinen Zhu
Software Mentions: 2
Published: over 7 years ago

10.1242/jcs.226852

Nuclear actin interactome analysis links actin to KAT14 histone acetyl transferase and mRNA splicing
Cited by: 36
Author(s): Tiina Viita, Salla Kyheröinen, Bina Prajapati, Jori Virtanen, Mikko J. Frilander, Markku Varjosalo, Maria K. Vartiainen
Software Mentions: 2
Published: almost 7 years ago

10.1242/jcs.258399

Maintenance of complex I and its supercomplexes by NDUF-11 is essential for mitochondrial structure, function and health
Cited by: 13
Author(s): Amber Knapp-Wilson, Gonçalo C. Pereira, Emma Buzzard, Holly C Ford, A. Richardson, Robin A. Corey, Chris Neal, Paul Verkade, Andrew P. Halestrap, Vicki A. M. Gold, Patricia E. Kuwabara, Ian Collinson
Software Mentions: 2
Published: over 4 years ago

10.1021/acs.jctc.0c01281

Optimized Magnesium Force Field Parameters for Biomolecular Simulations with Accurate Solvation, Ion-Binding, and Water-Exchange Properties
Cited by: 29
Author(s): Kara K. Grotz, Sergio Cruz-León, Nadine Schwierz
Software Mentions: 2
Published: over 4 years ago

10.1186/1758-2946-4-17

Avogadro: an advanced semantic chemical editor, visualization, and analysis platform
Cited by: 5,518
Author(s): Marcus D. Hanwell, Donald Curtis, David Lonie, Tim Vandermeersch, Eva Zurek, Geoffrey Hutchison
Software Mentions: 2
Published: over 13 years ago

10.1186/s13321-019-0390-3

Identifying new topoisomerase II poison scaffolds by combining publicly available toxicity data and 2D/3D-based virtual screening
Cited by: 5
Author(s): Anna Lovrics, Veronika F.S. Pape, Dániel Szisz, Adrián Kalászi, Petra Heffeter, Csaba Magyar, Gergely Szakács
Software Mentions: 2
Published: about 6 years ago

10.1186/s13321-020-00460-5

Molecular representations in AI-driven drug discovery: a review and practical guide
Cited by: 176
Author(s): Laurianne David, Amol Thakkar, Rocío Mercado, Ola Engkvist
Software Mentions: 2
Published: about 5 years ago

10.1172/JCI142823

An unbiased approach to defining bona fide cancer neoepitopes that elicit immune-mediated cancer rejection
Cited by: 16
Author(s): Cory A. Brennick, Mariam M. George, Marmar Moussa, Adam T. Hagymasi, Sahar Al Seesi, Tatiana Shcheglova, Ryan P Englander, Grant L.J. Keller, Jeremy L. Balsbaugh, Brian M. Baker, Andrea Schietinger, Ion Măndoiu, Pramod K. Srivastava
Software Mentions: 2
Published: almost 5 years ago

10.1007/s10822-020-00277-2

Conformational analysis of macrocycles: comparing general and specialized methods
Cited by: 16
Author(s): Gustav Olanders, Hiba Alogheli, Peter Brandt, Anders Karlén
Software Mentions: 2
Published: almost 6 years ago

10.1007/s10822-020-00301-5

A Taxicab geometry quantification system to evaluate the performance of in silico methods: a case study on adenosine receptors ligands
Cited by: 0
Author(s): Kamil Kuder, Ilona Michalik, Katarzyna Kieć‐Kononowicz, Peter Kolb
Software Mentions: 2
Published: over 5 years ago

10.1007/s10822-015-9839-2

Statistical dictionaries for hypothetical in silico model of the early-stage intermediate in protein folding
Cited by: 8
Author(s): Barbara Kalinowska, Piotr Fabian, Katarzyna Stąpor, Irena Roterman
Software Mentions: 2
Published: over 10 years ago

10.1002/jcc.26559

<scp> <i>MonteCarbo</i> </scp> : A software to generate and dock multifunctionalized ring molecules
Cited by: 0
Author(s): Santiago Alonso-Gil
Software Mentions: 2
Published: over 4 years ago

10.1210/js.2019-00260

Using Structural Analysis In Silico to Assess the Impact of Missense Variants in MEN1
Cited by: 14
Author(s): Richard Caswell, Martina Owens, Adam C. Gunning, Sian Ellard, Caroline F. Wright
Software Mentions: 2
Published: about 6 years ago

10.1080/14756366.2017.1370584

Characterization of human S-adenosyl-homocysteine hydrolase <i>in vitro</i> and identification of its potential inhibitors
Cited by: 2
Author(s): Weiwei Hao, Yanhua Li, Qiuli Shan, Ting Han, Wencheng Li, Sheng He, Kongkai Zhu, Yumei Li, Xiaojun Tan, Jinsong Gu
Software Mentions: 2
Published: almost 9 years ago

10.1080/14756366.2020.1837123

Crystal structure-guided design of berberine-based novel chitinase inhibitors
Cited by: 13
Author(s): Lei Chen, Ling Zhu, Jinli Chen, Wei Chen, Xuhong Qian, Qing Yang
Software Mentions: 2
Published: almost 6 years ago

10.1093/jxb/erx242

ACCERBATIN, a small molecule at the intersection of auxin and reactive oxygen species homeostasis with herbicidal properties
Cited by: 6
Author(s): Yuming Hu, Thomas Depaepe, Dajo Smet, Klára Hoyerová, Petr Klíma, Ann Cuypers, Sean R. Cutler, Dieter Buyst, Kris Morreel, Wout Boerjan, José Martins, Jan Petrášek, Filip Vandenbussche, Dominique Van Der Straeten
Software Mentions: 2
Published: over 8 years ago

10.1038/srep39024

Comparative Proteomics Reveals that Phosphorylation of β Carbonic Anhydrase 1 Might be Important for Adaptation to Drought Stress in Brassica napus
Cited by: 31
Author(s): Limin Wang, Xiang Jin, Qingbin Li, Xuchu Wang, Zaiyun Li, Xiaoming Wu
Software Mentions: 2
Published: almost 9 years ago

10.1038/srep40254

Crystal Structure of StnA for the Biosynthesis of Antitumor Drug Streptonigrin Reveals a Unique Substrate Binding Mode
Cited by: 5
Author(s): Tianle Qian, Jing Wo, Yan Zhang, Quanwei Song, Guoqiang Feng, Ray Luo, Shuangjin Lin, Geng Wu, Haifeng Chen
Software Mentions: 2
Published: almost 9 years ago

10.1038/srep41487

Identification of a novel selective PPARγ ligand with a unique binding mode and improved therapeutic profile in vitro
Cited by: 15
Author(s): Wei Yi, Jingjing Shi, Guanguan Zhao, Xuemei Zhou, Kelly Suino-Powell, Karsten Melcher, H. Eric Xu
Software Mentions: 2
Published: almost 9 years ago

10.1038/srep41212

Two strategies to engineer flexible loops for improved enzyme thermostability
Cited by: 111
Author(s): Haoran Yu, Yihan Yan, Cheng Zhang, Paul A. Dalby
Software Mentions: 2
Published: almost 9 years ago

10.1038/srep42711

Structural basis for fragmenting the exopolysaccharide of Acinetobacter baumannii by bacteriophage ΦAB6 tailspike protein
Cited by: 37
Author(s): I‐Ming Lee, I-Fan Tu, Yang Fu, Tzu‐Ping Ko, Jiahn-Haur Liao, Ning Lin, Chung‐Yi Wu, Chien‐Tai Ren, Andrew H.‐J. Wang, Ching-Ming Chang, Kai‐Fa Huang, Shih‐Hsiung Wu
Software Mentions: 2
Published: over 8 years ago

10.1038/srep43318

ACCORD: an assessment tool to determine the orientation of homodimeric coiled-coils
Cited by: 6
Author(s): Byeong Won Kim, Yang Ouk Jung, Min Kyung Kim, Do Hoon Kwon, Si Hoon Park, Jun Hoe Kim, Yong Boo Kuk, Sun Joo Oh, Leehyeon Kim, Bong Heon Kim, Woo Seok Yang, Hyun Kyu Song
Software Mentions: 2
Published: over 8 years ago

10.1038/srep44341

Characterization of long and stable de novo single alpha-helix domains provides novel insight into their stability
Cited by: 36
Author(s): Marcin Wolny, Matthew Batchelor, Gail J. Bartlett, Emily G. Baker, Marta Kurzawa, Peter J. Knight, Lorna Dougan, Derek N. Woolfson, Emanuele Paci, Michelle Peckham
Software Mentions: 2
Published: over 8 years ago

10.1038/srep45224

Probing Medin Monomer Structure and its Amyloid Nucleation Using 13C-Direct Detection NMR in Combination with Structural Bioinformatics
Cited by: 10
Author(s): Hannah A. Davies, Daniel J. Rigden, Marie M. Phelan, Jillian Madine
Software Mentions: 2
Published: over 8 years ago

10.1038/srep45505

Global evolutionary history and spatio-temporal dynamics of dengue virus type 2
Cited by: 29
Author(s): Kaifa Wei, Yuhan Li
Software Mentions: 2
Published: over 8 years ago

10.1038/srep08560

The catalytic role of the M2 metal ion in PP2Cα
Cited by: 16
Author(s): Chang Pan, Junyi Tang, Yaping Xu, Xiao Peng, Hongda Liu, Hao-an Wang, Wenbo Wang, Fanyue Meng, Xiao Yu, Junying Sun
Software Mentions: 2
Published: over 10 years ago

10.1038/s41598-017-00147-2

PRL3 phosphatase active site is required for binding the putative magnesium transporter CNNM3
Cited by: 41
Author(s): Huizhi Zhang, Guennadi Kozlov, Xinlu Li, Howie Wu, Irina Gulerez, Kalle Gehring
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-01186-5

Small methyltransferase RlmH assembles a composite active site to methylate a ribosomal pseudouridine
Cited by: 12
Author(s): Cha San Koh, Rohini Madireddy, Timothy J. Beane, Phillip D. Zamore, А.A. Коростелев
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-00917-y

A bacterial ABC transporter enables import of mammalian host glycosaminoglycans
Cited by: 21
Author(s): Shigetoshi Oiki, Bunzo Mikami, Yukie Maruyama, Kousaku Murata, Wataru Hashimoto
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-01057-z

Structural investigations on orotate phosphoribosyltransferase from Mycobacterium tuberculosis, a key enzyme of the de novo pyrimidine biosynthesis
Cited by: 22
Author(s): Stefano Donini, Davide M. Ferraris, Riccardo Miggiano, Alberto Massarotti, Menico Rizzi
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-01989-6

Structural studies of the periplasmic portion of the diguanylate cyclase CdgH from Vibrio cholerae
Cited by: 8
Author(s): Min Xu, Yizhi Wang, Xiu‐An Yang, Tao Jiang, Wei Xie
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-02823-9

Efficient Generation of Bispecific Murine Antibodies for Pre-Clinical Investigations in Syngeneic Rodent Models
Cited by: 31
Author(s): Aran F. Labrijn, Joyce Meesters, Matthew W. Bunce, Anthony A. Armstrong, Sandeep Somani, Tom Nesspor, Mark L. Chiu, Işıl Altıntaş, Sandra Verploegen, Janine Schuurman, Paul W.H.I. Parren
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-02805-x

A nucleotide-controlled conformational switch modulates the activity of eukaryotic IMP dehydrogenases
Cited by: 32
Author(s): Rubén M. Buey, David Fernández‐Justel, Íñigo Marcos‐Alcalde, Graeme Winter, Paulino Gómez‐Puertas, José M. de Pereda, José Luis Revuelta
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-02803-z

Construction of novel repeat proteins with rigid and predictable structures using a shared helix method
Cited by: 22
Author(s): Suk-Jun Youn, Nayoung Kwon, Ji Hyun Lee, Jin Hong Kim, Jin‐Woo Choi, Hayyoung Lee, Jie‐Oh Lee
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-03220-y

Bacterial protease uses distinct thermodynamic signatures for substrate recognition
Cited by: 13
Author(s): G.A. Bezerra, Yuko Ohara‐Nemoto, Irina Cornaciu, Sofiya Fedosyuk, Guillaume Hoffmann, Adam Round, José Antonio Márquez, Takayuki Nemoto, Kristina Djinović-Carugo
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-03664-2

Antibacterial and detoxifying activity of NZ17074 analogues with multi-layers of selective antimicrobial actions against Escherichia coli and Salmonella enteritidis
Cited by: 48
Author(s): Na Yang, Xuehui Liu, Da Teng, Zhanzhan Li, Xiumin Wang, Ruoyu Mao, Xiao Wang, Ya Hao, Jianhua Wang
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-05234-y

Structural and Biochemical Characterization of Apicomplexan Inorganic Pyrophosphatases
Cited by: 2
Author(s): Abhishek Jamwal, Manickam Yogavel, M. Z. Abdin, Swatantra Kumar Jain, Amit Sharma
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-05509-4

Structure of polyhydroxyalkanoate (PHA) synthase PhaC from Chromobacterium sp. USM2, producing biodegradable plastics
Cited by: 69
Author(s): Min Fey Chek, Sunyong Kim, Tomoyuki Mori, Hasni Arsad, Mohammed Razip Samian, Kumar Sudesh, Toshio Hakoshima
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-05657-7

Plasticity in the Oxidative Folding Pathway of the High Affinity Nerita Versicolor Carboxypeptidase Inhibitor (NvCI)
Cited by: 4
Author(s): Sebastián Esperante, Giovanni Covaleda, Sebastián A. Trejo, Sílvia Bronsoms, Francesc X. Aviles, Salvador Ventura
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-05627-z

X-ray crystallographic structure of a bacterial polysialyltransferase provides insight into the biosynthesis of capsular polysialic acid
Cited by: 12
Author(s): Christian Lizak, L.J. Worrall, Lars Baumann, Moritz M. Pfleiderer, Gesa Volkers, Tianjun Sun, Lyann Sim, Warren W. Wakarchuk, Stephen G. Withers, N.C.J. Strynadka
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-05268-2

Structural and Functional Analysis of Latex Clearing Protein (Lcp) Provides Insight into the Enzymatic Cleavage of Rubber
Cited by: 25
Author(s): Lorena Ilcu, Wolf Röther, Jakob Birke, Anton Brausemann, Oliver Einsle, Dieter Jendrossek
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-06612-2

Evaluation of Sofosbuvir (β-D-2′-deoxy-2′-α-fluoro-2′-β-C-methyluridine) as an inhibitor of Dengue virus replication #
Cited by: 51
Author(s): Hongtao Xu, Susan P. Colby-Germinario, Said Hassounah, Clare Fogarty, Nathan Osman, Navaneethan Palanisamy, Ying-Shan Han, Maureen Oliveira, Yudong Quan, Mark A. Wainberg
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-06023-3

Search for non-lactam inhibitors of mtb β-lactamase led to its open shape in apo state: new concept for antibiotic design
Cited by: 10
Author(s): Amin Sagar, Nazia Haleem, Yaawar Mir Bashir, . Ashish
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-05594-5

Escape from humoral immunity is associated with treatment failure in HIV-1-infected patients receiving long-term antiretroviral therapy
Cited by: 6
Author(s): Yabo Ouyang, Qianqian Yin, Wei Li, Zhenpeng Li, Desheng Kong, Yanling Wu, Kui Hong, Hui Xing, Yiming Shao, Shibo Jiang, Tianlei Ying, Liying Ma
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-06278-w

Mechanisms and Specificity of Phenazine Biosynthesis Protein PhzF
Cited by: 11
Author(s): Christina Diederich, Mario Leypold, Martin Culka, Hansjörg Weber, Rolf Breinbauer, G. Matthias Ullmann, Wulf Blankenfeldt
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-06578-1

Structure of Chorismate Mutase-like Domain of DAHPS from Bacillus subtilis Complexed with Novel Inhibitor Reveals Conformational Plasticity of Active Site
Cited by: 11
Author(s): Shivendra Pratap, Aditya Dev, Vijay Kumar, Ravi Yadav, M. Narwal, Shailly Tomar, Pravindra Kumar
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-01705-4

Structural analysis of the regulatory mechanism of MarR protein Rv2887 in M. tuberculosis
Cited by: 16
Author(s): Yunrong Gao, Defeng Li, Joy Fleming, Ya‐Feng Zhou, Ying Liu, Jiao-Yu Deng, Lin Zhou, Jie Zhou, Guofeng Zhu, Xian-En Zhang, Dacheng Wang, Lijun Bi
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-06575-4

Predicting the functional consequences of non-synonymous single nucleotide polymorphisms in IL8 gene
Cited by: 70
Author(s): Tikam Chand Dakal, Deepak Kala, Gourav Dhiman, Vinod Kumar Yadav, A. Krokhotin, Nikolay V. Dokholyan
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-06446-y

A novel proton transfer mechanism in the SLC11 family of divalent metal ion transporters
Cited by: 27
Author(s): Jonai Pujol‐Giménez, Matthias A. Hediger, Gergely Gyimesi
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-07436-w

Aspergillus Secondary Metabolite Database, a resource to understand the Secondary metabolome of Aspergillus genus
Cited by: 57
Author(s): Varahalarao Vadlapudi, Nabajyoti Borah, Kanaka Raju Yellusani, Sriramya Gade, P. Sunder Ram Reddy, Maheshwari Rajamanikyam, Lakshmi Vempati, Satya Prakash Gubbala, Pankaj Chopra, Suryanarayana Murty Upadhyayula, Ramars Amanchy
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-08303-4

Structural characterization of CAS SH3 domain selectivity and regulation reveals new CAS interaction partners
Cited by: 12
Author(s): Jakub Gemperle, R. Hexnerova, Martin Lepšı́k, Petr Těšina, Michal Dibus, Marián Novotný, Jan Brábek, Václav Veverka, Daniel Rösel
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-08834-w

Structural analysis of Wss1 protein from saccharomyces cerevisiae
Cited by: 9
Author(s): Xiaoyun Yang, Yanhua Li, Zengqiang Gao, Zongqiang Li, Jianhua Xu, Wenjia Wang, Yuhui Dong
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-08742-z

Identification and Characterization of a Bacterial Homolog of Chloride Intracellular Channel (CLIC) Protein
Cited by: 18
Author(s): Shubha Gururaja Rao, Devasena Ponnalagu, Sowmya Sukur, Harkewal Singh, Shridhar Sanghvi, Yixiao Mei, Ding Jun Jin, Harpreet Singh
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-019-46230-8

Structural characterization of life-extending Caenorhabditis elegans Lipid Binding Protein 8
Cited by: 8
Author(s): Matthew Tillman, Manoj Khadka, Jonathon Duffy, Meng C. Wang, Eric A. Ortlund
Software Mentions: 2
Published: over 6 years ago

10.1038/s41598-019-46770-z

Structural and Functional Insights into GluK3-kainate Receptor Desensitization and Recovery
Cited by: 18
Author(s): Jyoti Kumari, Rajesh Vinnakota, Janesh Kumar
Software Mentions: 2
Published: over 6 years ago

10.1038/s41598-019-47485-x

Population variability of rhesus macaque (Macaca mulatta) NAT1 gene for arylamine N-acetyltransferase 1: Functional effects and comparison with human
Cited by: 2
Author(s): Sotiria Boukouvala, Zoi Chasapopoulou, Despina Giannouri, Evanthia Kontomina, Nikolaos Marinakis, Sophia V. Rizou, Ioanna Stefani, Theodora Tsirka, Charlotte Veyssière, Sofia Zaliou, Audrey Sabbagh, Brigitte Crouau‐Roy, Giannoulis Fakis
Software Mentions: 2
Published: over 6 years ago

10.1038/s41598-019-48612-4

Non-Contact Universal Sample Presentation for Room Temperature Macromolecular Crystallography Using Acoustic Levitation
Cited by: 16
Author(s): Robert H. Morris, E. Dye, Danny Axford, Michael I. Newton, John Beale, Peter Docker
Software Mentions: 2
Published: about 6 years ago

10.1038/s41598-019-50671-6

Scribble co-operatively binds multiple α1D-adrenergic receptor C-terminal PDZ ligands
Cited by: 13
Author(s): Eric M. Janezic, Dorathy-Ann Harris, Diana Dinh, Kyung-Soon Lee, Aaron Stewart, Thomas R. Hinds, Peter L. Hsu, Ning Zheng, Chris Hague
Software Mentions: 2
Published: about 6 years ago

10.1038/s41598-019-51530-0

Assessment of glucagon receptor occupancy by Positron Emission Tomography in non-human primates
Cited by: 10
Author(s): Olof Eriksson, Irina Velikyan, Torsten Haack, Martin Bossart, Andreas Evers, Iina Laitinen, Philip J. Larsen, Oliver Plettenburg, Akihiro Takano, Christer Halldin, Gunnar Antoni, Lars Johansson, Stefan Pierrou, Michael R. Wagner
Software Mentions: 2
Published: about 6 years ago

10.1038/s41598-019-52121-9

Rigid fusions of designed helical repeat binding proteins efficiently protect a binding surface from crystal contacts
Cited by: 11
Author(s): Patrick Erñst, Annemarie Honegger, Floor van der Valk, Christina Ewald, Peer R. E. Mittl, Andreas Plückthun
Software Mentions: 2
Published: about 6 years ago

10.1038/s41598-019-52626-3

The citrus flavonoid naringenin impairs the in vitro infection of human cells by Zika virus
Cited by: 68
Author(s): Allan Henrique Depieri Cataneo, Diogo Kuczera, Andrea Cristine Koishi, Camila Zanluca, Guilherme Ferreira Silveira, Thaís Bonato de Arruda, Andréia Akemi Suzukawa, Leandro Oliveira Bortot, Marcelo Dias‐Baruffi, Waldiceu A. Verri, Anny Waloski Robert, Marco Augusto Stimamiglio, Claudia Nunes Duarte dos Santos, Pryscilla Fanini Wowk, Juliano Bordignon
Software Mentions: 2
Published: about 6 years ago