10.1126/sciadv.aav2623

A functional proteomics platform to reveal the sequence determinants of lysine methyltransferase substrate selectivity
Cited by: 25
Author(s): Evan M. Cornett, Bradley M. Dickson, Krzysztof Krajewski, Nicholas Spellmon, Andrew Umstead, Robert M. Vaughan, Kevin M. Shaw, Philip Versluis, Martis W. Cowles, J.S. Brunzelle, Zhe Yang, Irving E. Vega, Zu Wen Sun, Scott B. Rothbart
Software Mentions: 2
Published: about 7 years ago

10.1186/1472-6807-7-10

Structural investigations of the ferredoxin and terminal oxygenase components of the biphenyl 2,3-dioxygenase from Sphingobium yanoikuyae B1
Cited by: 70
Author(s): D.J. Ferraro, Eric N. Brown, Chung Huang Yu, Rebecca E. Parales, David T. Gibson, S. Ramaswamy
Software Mentions: 2
Published: over 18 years ago

10.1126/sciadv.1500980

The crystal structure of human dopamine β-hydroxylase at 2.9 Å resolution
Cited by: 76
Author(s): Trine V. Vendelboe, Pernille Harris, Yuguang Zhao, Thomas S. Walter, K. Harlos, Kamel El Omari, Hans Erik Mølager Christensen
Software Mentions: 2
Published: over 9 years ago

10.1038/srep08789

Substitution of tryptophan 89 with tyrosine switches the DNA binding mode of PC4
Cited by: 17
Author(s): Jinguang Huang, Yanxiang Zhao, Huaian Liu, Dan Huang, Xiankun Cheng, Wensheng Zhao, Ian A. Taylor, Junfeng Liu, You-Liang Peng
Software Mentions: 2
Published: over 10 years ago

10.1038/srep16950

Structure of human carbamoyl phosphate synthetase: deciphering the on/off switch of human ureagenesis
Cited by: 57
Author(s): Sergio de Cima, Luis Mariano Polo, Carmen Dı́ez-Fernández, Ana Isabel Martínez, Javier Cervera, Ignacio Fita, Vicente Rubio
Software Mentions: 2
Published: almost 10 years ago

10.1186/1742-4690-10-64

Biophysical characterization and crystal structure of the Feline Immunodeficiency Virus p15 matrix protein
Cited by: 12
Author(s): J. Serrière, Xavier Robert, M. Perez, Patrice Gouet, Christophe Guillon
Software Mentions: 2
Published: over 12 years ago

10.1186/1742-4690-2-59

Amino acid residues that are important for Hyal2 function as a receptor for jaagsiekte sheep retrovirus
Cited by: 13
Author(s): Fuh Mei Duh, Clarissa Dirks, Michael I. Lerman, A. Dusty Miller
Software Mentions: 2
Published: about 20 years ago

10.1186/1742-4690-10-81

HIV-1 capsid undergoes coupled binding and isomerization by the nuclear pore protein NUP358
Cited by: 92
Author(s): Katsiaryna Bichel, Amanda J. Price, Torsten Schaller, Greg J. Towers, Stefan Freund, Leo C. James
Software Mentions: 2
Published: over 12 years ago

10.21203/rs.3.rs-40159/v1

Structure of human steroid 5α-reductase 2 with anti-androgen drug finasteride
Cited by: 4
Author(s): Qiuping Xiao, Lei Wang, Shreyas Supekar, Tao Shen, Heng Liu, Fei Ye, Junzhou Huang, Hao Fan, Zhiyi Wei, Cheng Zhang
Software Mentions: 2
Published: over 5 years ago

10.3390/jof7070553

A Fungal Defensin Targets the SARS−CoV−2 Spike Receptor−Binding Domain
Cited by: 11
Author(s): Bin Gao, Shunyi Zhu
Software Mentions: 2
Published: over 4 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

10.1107/S2052252519003622

A simple and versatile microfluidic device for efficient biomacromolecule crystallization and structural analysis by serial crystallography
Cited by: 21
Author(s): Raphaël de Wijn, O. Hennig, J Roche, S. Engilberge, K. Rollet, Pablo Fernández-Millán, Karl Brillet, Heike Betat, Mario Mörl, Alain Roussel, Éric Girard, Christoph Mueller-Dieckmann, Gavin C. Fox, V. Oliéric, José A. Gavira, Bernard Lorber, Claude Sauter
Software Mentions: 2
Published: over 6 years ago

10.21203/rs.3.rs-625642/v1

Structures of synthetic nanobody–SARS-CoV-2–RBD complexes reveal distinct sites of interaction and recognition of variants
Cited by: 0
Author(s): David H. Margulies, Javeed Ahmad, Jiansheng Jiang, Lisa F. Boyd, Allison Zeher, Rick Huang, Di Xia, Kannan Natarajan
Software Mentions: 2
Published: over 4 years ago

10.3390/pathogens8040221

Non-Specific Lipid Transfer Proteins in Triticum kiharae Dorof. et Migush.: Identification, Characterization and Expression Profiling in Response to Pathogens and Resistance Inducers
Cited by: 14
Author(s): Т. И. Одинцова, Marina P. Slezina, Tatyana V. Korostyleva, Alexey S. Kovtun, Artem S. Kasianov, Л. А. Щербакова, A. M. Kudryavtsev
Software Mentions: 2
Published: about 6 years ago

10.1186/1472-6807-13-6

Structural and functional studies of S-adenosyl-L-methionine binding proteins: a ligand-centric approach
Cited by: 37
Author(s): Rajaram Gana, Shruti Rao, Hongzhan Huang, Cathy H. Wu, Sona Vasudevan
Software Mentions: 2
Published: over 12 years ago

10.1128/mBio.02660-18

Targeting Mannitol Metabolism as an Alternative Antimicrobial Strategy Based on the Structure-Function Study of Mannitol-1-Phosphate Dehydrogenase in Staphylococcus aureus
Cited by: 16
Author(s): Thanh H. Nguyen, Truc Kim, Hai Minh Ta, Won Sik Yeo, Joon‐Hwan Choi, Pushpak Mizar, Seung Seo Lee, Taeok Bae, Akhilesh Kumar Chaurasia, Kyeong Kyu Kim
Software Mentions: 2
Published: about 6 years ago

10.1186/1742-4690-10-126

Functional conservation of HIV-1 Gag: implications for rational drug design
Cited by: 56
Author(s): Guangdi Li, Jens Verheyen, Soo-Yon Rhee, Arnout Voet, Anne‐Mieke Vandamme, Kristof Theys
Software Mentions: 2
Published: about 12 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

10.1002/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

10.1080/14756366.2020.1837123

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

10.1007/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

10.1007/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/s10822-020-00277-2

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

10.1038/srep18292

A unique GCN5-related glucosamine N-acetyltransferase region exist in the fungal multi-domain glycoside hydrolase family 3 β-N-acetylglucosaminidase
Cited by: 10
Author(s): Zhen Qin, Yibei Xiao, Xinbin Yang, J.R. Mesters, Shaoqing Yang, Zhengqiang Jiang
Software Mentions: 2
Published: almost 10 years ago

10.1007/s11011-019-00465-6

Bioinformatics classification of mutations in patients with Mucopolysaccharidosis IIIA
Cited by: 20
Author(s): Himani Tanwar, Dileep Kumar, George Priya Doss C, Hatem Zayed
Software Mentions: 2
Published: over 6 years ago

10.7717/peerj.1040

Enhancement of<i>E. coli</i>acyl-CoA synthetase FadD activity on medium chain fatty acids
Cited by: 18
Author(s): Tyler J. Ford, Jeffrey C. Way
Software Mentions: 2
Published: over 10 years ago

10.1016/j.bbrep.2016.03.004

Molecular docking, a tool to determine interaction of CuO and TiO 2 nanoparticles with human serum albumin
Cited by: 18
Author(s): Sandesh Chibber, Irshad Ahmad
Software Mentions: 2
Published: over 9 years ago

10.1371/journal.pone.0039993

Analysis of Conformational Variation in Macromolecular Structural Models
Cited by: 6
Author(s): Sandeep Srivastava, S Gayathri, Babu A. Manjasetty, B. Gopal
Software Mentions: 2
Published: over 13 years ago

10.1371/journal.pone.0212339

Molecular features of steroid-binding antidins and their use for assaying serum progesterone
Cited by: 2
Author(s): Nitin Agrawal, Soili I. Lehtonen, Meri Uusi-Mäkelä, Purvi Jain, Sari Viitala, Juha Määttä, Niklas Kähkönen, Latifeh Azizi, Tiina A. Riihimäki, Markku S. Kulomaa, Mark S. Johnson, Vesa P. Hytönen, Tomi T. Airenne
Software Mentions: 2
Published: over 6 years ago

10.3390/life10070109

Optimization of Molecular Dynamics Simulations of c-MYC1-88—An Intrinsically Disordered System
Cited by: 8
Author(s): Sandra S. Sullivan, Robert O. J. Weinzierl
Software Mentions: 2
Published: over 5 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

10.7717/peerj.1958

Exploring the chemical space of influenza neuraminidase inhibitors
Cited by: 23
Author(s): Nuttapat Anuwongcharoen, Watshara Shoombuatong, Tanawut Tantimongcolwat, Virapong Prachayasittikul, Chanin Nantasenamat
Software Mentions: 2
Published: over 9 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

10.7717/peerj.7504

Comprehensive classification of the plant non-specific lipid transfer protein superfamily towards its sequence–structure–function analysis
Cited by: 15
Author(s): Cécile Fleury, Jérôme Gracy, Marie‐Françoise Gautier, Jean-Luc Pons, Jean François Dufayard, Gilles Labesse, Manuel Ruiz, Frédéric de Lamotte
Software Mentions: 2
Published: over 6 years ago

10.1186/s12934-019-1190-1

Structural and functional characterization of a novel cold-active S-formylglutathione hydrolase (SfSFGH) homolog from Shewanella frigidimarina, a psychrophilic bacterium
Cited by: 11
Author(s): Chang Woo Lee, Woo-Kyoung Yoo, Sunha Park, Ly Le, Chang-Sung Jeong, Bum Han Ryu, Seung Chul Shin, Han-Woo Kim, Hyun Park, Kyeong Kyu Kim, T. Doohun Kim, Jun Hyuck Lee
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.pone.0242686

Identification of the Clostridial cellulose synthase and characterization of the cognate glycosyl hydrolase, CcsZ
Cited by: 12
Author(s): William C. Scott, Brian Lowrance, Alexander C Anderson, Joel T. Weadge
Software Mentions: 2
Published: almost 5 years ago

10.1186/1472-6807-13-17

Short tandem repeats in the inhibitory domain of the mineralocorticoid receptor: prediction of a β-solenoid structure
Cited by: 9
Author(s): Metaxia Vlassi, Katharina Brauns, Miguel A. Andrade‐Navarro
Software Mentions: 2
Published: almost 13 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

10.1186/1758-2946-4-17

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

10.34172/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

10.1155/2016/8683713

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

10.1111/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

10.1007/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/s10858-015-9933-8

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/s10858-021-00365-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

10.1242/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

10.1186/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

10.1074/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

10.1107/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.M113.534628

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/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

10.1186/s12900-015-0037-1

Binding of undamaged double stranded DNA to vaccinia virus uracil-DNA Glycosylase
Cited by: 8
Author(s): Norbert Schormann, Surajit Banerjee, Robert P. Ricciardi, Debasish Chattopadhyay
Software Mentions: 2
Published: over 10 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/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

10.3390/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

10.3390/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

10.1172/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

10.1186/1472-6807-7-34

The NMR structure of the murine DLC2 SAM domain reveals a variant fold that is similar to a four-helix bundle
Cited by: 17
Author(s): Janice Kwan, Logan W. Donaldson
Software Mentions: 2
Published: almost 19 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

10.3390/molecules24010142

Identification of Novel Potential Inhibitors of Pteridine Reductase 1 in Trypanosoma brucei via Computational Structure-Based Approaches and in Vitro Inhibition Assays
Cited by: 19
Author(s): Magambo Phillip Kimuda, Dustin Laming, Özlem Tastan Bishop
Software Mentions: 2
Published: almost 7 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/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

10.1172/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

10.1038/srep18462

Cancer associated missense mutations in BAP1 catalytic domain induce amyloidogenic aggregation: A new insight in enzymatic inactivation
Cited by: 38
Author(s): Sushmita Bhattacharya, Pranita Hanpude, Tushar Kanti Maiti
Software Mentions: 2
Published: almost 10 years ago

10.1371/journal.pntd.0005374

Structure of SALO, a leishmaniasis vaccine candidate from the sand fly Lutzomyia longipalpis
Cited by: 10
Author(s): Oluwatoyin A. Asojo, Alan Kelleher, Zhuyun Liu, Jeroen Pollet, Elissa M. Hudspeth, Wanderson Rezende, Mallory Jo Groen, Christopher A. Seid, Maha Abdeladhim, Shannon E. Townsend, Waldionê de Castro, Antonio Ferreira Mendes-Sousa, Daniella Castanheira Bartholomeu, Ricardo Toshio Fujiwara, María Elena Bottazzi, Peter J. Hotez, Bin Zhan, Fabiano Oliveira, Shaden Kamhawi, Jesús G. Valenzuela
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pntd.0002578

Knockdown of Asparagine Synthetase A Renders Trypanosoma brucei Auxotrophic to Asparagine
Cited by: 12
Author(s): Inês Loureiro, Joana Faria, Christine Clayton, Sandra Macedo-Ribeiro, Nilanjan Roy, Nuno Santarém, Joana Tavares, Anabela Cordeiro-da-Silva
Software Mentions: 2
Published: almost 12 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

10.1371/journal.pntd.0008339

Spiro-containing derivatives show antiparasitic activity against Trypanosoma brucei through inhibition of the trypanothione reductase enzyme
Cited by: 10
Author(s): Lorenzo Turcano, Theo Battista, Esther Torrente De Haro, Antonino Missineo, Cristina Alli, Giacomo Paonessa, Gianni Colotti, Steven J. Harper, Annarita Fiorillo, Andrea Ilari, Alberto Bresciani
Software Mentions: 2
Published: over 5 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

10.1093/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

10.1017/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

10.1038/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

10.1590/1678-4685-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

10.3389/fphar.2018.00834

QM/MM Description of Newly Selected Catalytic Bioscavengers Against Organophosphorus Compounds Revealed Reactivation Stimulus Mediated by Histidine Residue in the Acyl-Binding Loop
Cited by: 9
Author(s): Alexander Zlobin, Yuliana A. Mokrushina, Stanislav S. Terekhov, Arthur O. Zalevsky, Т. В. Бобик, A. V. Stepanova, Maria Aliseychik, Olga V. Kartseva, С. В. Пантелеев, Andrey V. Golovin, Alexey A. Belogurov, Alexander G. Gabibov, Иван Смирнов
Software Mentions: 2
Published: over 7 years ago

10.3389/fphar.2019.00598

The Selective Rat Toxicant Norbormide Blocks KATP Channels in Smooth Muscle Cells But Not in Insulin-Secreting Cells
Cited by: 4
Author(s): Simona Saponara, Fabio Fusi, Ottavia Spiga, Alfonso Trezza, Brian Hopkins, Margaret A. Brimble, David Rennison, Sergio Bova
Software Mentions: 2
Published: over 6 years ago

10.3389/fphar.2021.697704

Exploring the Potential Molecular Mechanism of Scutellaria baicalensis Georgi in the Treatment of Gastric Cancer Based on Network Pharmacological Analysis and Molecular Docking Technology
Cited by: 12
Author(s): Yi Tu, Qiong Wu, Jiarui He, Jiasheng Xu, Shasha Yu, Qingfei Wang, Yunqi Cheng, Qijun Yang, Shan Xu, Yi Cao
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

10.1186/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

10.3389/fphar.2019.00474

Crystal Structure of the Monomeric Extracellular Domain of α9 Nicotinic Receptor Subunit in Complex With α-Conotoxin RgIA: Molecular Dynamics Insights Into RgIA Binding to α9α10 Nicotinic Receptors
Cited by: 38
Author(s): Marios Zouridakis, Athanasios Papakyriakou, Igor A. Ivanov, Igor E. Kasheverov, Victor I. Tsetlin, Socrates J. Tzartos, Petros Giastas
Software Mentions: 2
Published: over 6 years ago

10.3390/molecules22101696

Biological Evaluation and Molecular Docking of Protocatechuic Acid from Hibiscus sabdariffa L. as a Potent Urease Inhibitor by an ESI-MS Based Method
Cited by: 25
Author(s): Sherif T. S. Hassan, Emil Švajdlenka
Software Mentions: 2
Published: about 8 years ago

10.3389/fphar.2018.00008

Suppressive Effects of Clerodendrum volubile P Beauv. [Labiatae] Methanolic Extract and Its Fractions on Type 2 Diabetes and Its Complications
Cited by: 35
Author(s): Ochuko L. Erukainure, Rahman M. Hafizur, Nurul Kabir, M. Iqbal Choudhary, Olubunmi Atolanı, Priyanka Banerjee, Robert Preißner, Chika I. Chukwuma, Aliyu Muhammad, Eric O. Amonsou, Md. Shahidul Islam
Software Mentions: 2
Published: almost 8 years ago

10.3389/fphar.2016.00107

Cysteine Proteases: Modes of Activation and Future Prospects as Pharmacological Targets
Cited by: 168
Author(s): Sonia Verma, Rajnikant Dixit, Kailash C. Pandey
Software Mentions: 2
Published: over 9 years ago

10.3389/fphar.2020.00526

Kaempferol, a Major Flavonoid in Ginkgo Folium, Potentiates Angiogenic Functions in Cultured Endothelial Cells by Binding to Vascular Endothelial Growth Factor
Cited by: 26
Author(s): Weihui Hu, Huaiyou Wang, Yiteng Xia, Diana Dai, Qingping Xiong, Tina Tingxia Dong, Ran Duan, Gallant Kar-Lun Chan, Qi Qin, Karl Wah-Keung Tsim
Software Mentions: 2
Published: over 5 years ago

10.3389/fonc.2019.01294

p38α Mitogen-Activated Protein Kinase Is a Druggable Target in Pancreatic Adenocarcinoma
Cited by: 19
Author(s): Ling Yang, Xiaoting Sun, Ying Ye, Yongtian Lu, Jiane Zuo, Wen Li, Adrian H. Elcock, Shun Zhu
Software Mentions: 2
Published: almost 6 years ago

10.3389/fped.2019.00343

Biallelic Missense Mutation in the ECEL1 Underlies Distal Arthrogryposis Type 5 (DA5D)
Cited by: 14
Author(s): Muhammad Umair, Amjad Khan, Amir Hayat, Safdar Abbas, Abdulaziz Asiri, Muhammad Younus, Wajid Amin, Shoaib Nawaz, Shazia Khan, Erum Malik, Majid Alfadhel, Farooq Ahmad
Software Mentions: 2
Published: about 6 years ago

10.3389/fphar.2020.00246

Structure-Based Screening of Plasmodium berghei Glutathione S-Transferase Identifies CB-27 as a Novel Antiplasmodial Compound
Cited by: 5
Author(s): Emilee E. Colón-Lorenzo, Daisy D. Colón-López, Joel Vega-Rodríguez, Alice Dupin, David A. Fidock, Abel Baerga‐Ortiz, José G. Ortíz, Jürgen Bosch, Adelfa E. Serrano
Software Mentions: 2
Published: over 5 years ago

10.3389/fphar.2020.561834

Demystifying the Molecular Basis of Pyrazoloquinolinones Recognition at the Extracellular α1+/β3- Interface of the GABAA Receptor by Molecular Modeling
Cited by: 3
Author(s): Natesh Singh, Bruno O. Villoutreix
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.pgen.1000352

Residues Clustered in the Light-Sensing Knot of Phytochrome B are Necessary for Conformer-Specific Binding to Signaling Partner PIF3
Cited by: 56
Author(s): Elise A. Kikis, Yoshitomo Oka, Matthew E. Hudson, Akira Nagatani, Peter H. Quail
Software Mentions: 2
Published: almost 17 years ago

10.3389/fnmol.2018.00330

Molecular Details of Retinal Guanylyl Cyclase 1/GCAP-2 Interaction
Cited by: 9
Author(s): Anne Rehkamp, Dirk Tänzler, Claudio Iacobucci, Ralph Golbik, Christian Ihling, Andrea Sinz
Software Mentions: 2
Published: about 7 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

10.3389/fnmol.2018.00113

The LILI Motif of M3-S2 Linkers Is a Component of the NMDA Receptor Channel Gate
Cited by: 24
Author(s): Marek Ladislav, Jiří Černý, Jan Krůšek, Martin Hořák, Aleš Balík, Ladislav Vyklicky
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pntd.0009004

A novel circulating tamiami mammarenavirus shows potential for zoonotic spillover
Cited by: 4
Author(s): Héctor Moreno, Alberto Rastrojo, Rhys Pryce, Chiara Fedeli, Gert Zimmer, Thomas A. Bowden, Gisa Gerold, Stefan Kunz
Software Mentions: 2
Published: almost 5 years ago

10.1186/s12900-014-0025-x

In vitro histone lysine methylation by NSD1, NSD2/MMSET/WHSC1 and NSD3/WHSC1L
Cited by: 33
Author(s): Masaki Morishita, Damiaan E. H. F. Mevius, Eric di Luccio
Software Mentions: 2
Published: almost 11 years ago

10.1371/journal.pgen.1009539

Mapping the degradation pathway of a disease-linked aspartoacylase variant
Cited by: 11
Author(s): Sarah Gersing, Yong Wang, Martin Grønbæk-Thygesen, Caroline Kampmeyer, Lene Clausen, Martin Willemoës, Claes Andréasson, Amelie Stein, Kresten Lindorff‐Larsen, Rasmus Hartmann‐Petersen
Software Mentions: 2
Published: over 4 years ago

10.3389/fnmol.2014.00051

In silico, in vitro and cellular analysis with a kinome-wide inhibitor panel correlates cellular LRRK2 dephosphorylation to inhibitor activity on LRRK2
Cited by: 46
Author(s): Renée Vancraenenbroeck, Joren De Raeymaecker, Evy Lobbestael, Fangye Gao, Marc De Maeyer, Arnout Voet, Veerle Baekelandt, Jean-Marc Taymans
Software Mentions: 2
Published: over 11 years ago

10.3389/fmolb.2021.716466

SeamDock: An Interactive and Collaborative Online Docking Resource to Assist Small Compound Molecular Docking
Cited by: 17
Author(s): Samuel Murail, Sjoerd J. de Vries, Julien Rey, Gautier Moroy, Pierre Tufféry
Software Mentions: 2
Published: about 4 years ago

10.3389/fmolb.2017.00068

Structure and Interactions of the TPR Domain of Sgt2 with Yeast Chaperones and Ybr137wp
Cited by: 18
Author(s): E. Krysztofinska, N.J. Evans, Arjun Thapaliya, James W. Murray, Rhodri M. L. Morgan, Santiago Martínez-Lumbreras, Rivka L. Isaacson
Software Mentions: 2
Published: about 8 years ago

10.3389/fmolb.2015.00056

A script to highlight hydrophobicity and charge on protein surfaces
Cited by: 83
Author(s): Dominique Hagemans, Ianthe A. E. M. van Belzen, Tania Morán Luengo, Stefan Rüdiger
Software Mentions: 2
Published: about 10 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

10.1042/BCJ20200507

Fragment-derived modulators of an industrial β-glucosidase
Cited by: 2
Author(s): Eleni Makraki, John F. Darby, Marta G. Carneiro, James D. Firth, Alex Heyam, Eiso Ab, Peter O’Brien, Gregg Siegal, Roderick E. Hubbard
Software Mentions: 2
Published: almost 5 years ago