10.7717/peerj.2322

Probing the origins of human acetylcholinesterase inhibition via QSAR modeling and molecular docking
Cited by: 44
Author(s): Saw Simeon, Nuttapat Anuwongcharoen, Watshara Shoombuatong, Aijaz Ahmad Malik, Virapong Prachayasittikul, Jarl E. S. Wikberg, Chanin Nantasenamat
Software Mentions: 1
Published: over 9 years ago

10.7717/peerj.7425

Structural, functional and molecular dynamics analysis of <i>cathepsin B</i> gene SNPs associated with tropical calcific pancreatitis, a rare disease of tropics
Cited by: 5
Author(s): Garima Singh, Sri Krishna Jayadev Magani, R.C. Sharma, Basharat Ahmad Bhat, Ashish Shrivastava, Madhusudhan Chinthakindi, Ashutosh Singh
Software Mentions: 1
Published: about 6 years ago

10.7717/peerj.2136

Simple approach for ranking structure determining residues
Cited by: 2
Author(s): Oscar D. Luna-Martínez, Abraham Vidal-Limón, Miryam I. Villalba-Velázquez, Rosalba Sánchez-Alcalá, Ramón Garduño‐Juárez, Vladimir N. Uversky, Baltazar Becerril
Software Mentions: 1
Published: over 9 years ago

10.7717/peerj.798

Structure determination of Murine Norovirus NS6 proteases with C-terminal extensions designed to probe protease–substrate interactions
Cited by: 9
Author(s): Humberto Fernandes, Eoin N Leen, Hamlet Cromwell, Marc-Philipp Pfeil, Stephen Curry
Software Mentions: 1
Published: over 10 years ago

10.1007/s00424-014-1603-2

Two helices in the third intracellular loop determine anoctamin 1 (TMEM16A) activation by calcium
Cited by: 10
Author(s): Jesun Lee, James A. Jung, Min Ho Tak, Jungwon Wee, Byeongjoon Lee, Yongwoo Jang, Hyeyeon Chun, Dong‐Jin Yang, Young Soon Yang, Sang Ho Park, Byung Woo Han, Soonsil Hyun, Jaehoon Yu, Hawon Cho, H. Criss Hartzell, Uhtaek Oh
Software Mentions: 1
Published: about 11 years ago

10.3390/ph14030241

Schisandrol A Suppresses Catabolic Factor Expression by Blocking NF-κB Signaling in Osteoarthritis
Cited by: 3
Author(s): Seong Jae Han, Jimoon Jun, Seong‐il Eyun, Choong-Gu Lee, Jimin Jeon, Cheol‐Ho Pan
Software Mentions: 1
Published: over 4 years ago

10.3390/ph8030455

On the Quest of Cellular Functions of PEA-15 and the Therapeutic Opportunities
Cited by: 8
Author(s): Yufeng Wei
Software Mentions: 1
Published: over 10 years ago

10.3390/ph14040357

Identification of Anti-SARS-CoV-2 Compounds from Food Using QSAR-Based Virtual Screening, Molecular Docking, and Molecular Dynamics Simulation Analysis
Cited by: 20
Author(s): Magdi E. A. Zaki, Sami A. Al‐Hussain, Vijay H. Masand, Siddhartha Akasapu, Sumit O. Bajaj, Nahed N. E. El-Sayed, Arabinda Ghosh, Israa Lewaa
Software Mentions: 1
Published: over 4 years ago

10.3390/ph13120447

Inhibition of SARS-CoV-2 Entry into Host Cells Using Small Molecules
Cited by: 22
Author(s): Kenana Al Adem, Aya Shanti, Cesare Stefanini, Sungmun Lee
Software Mentions: 1
Published: almost 5 years ago

10.3390/ph14070638

Novel Purine Chemotypes with Activity against Plasmodium falciparum and Trypanosoma cruzi
Cited by: 5
Author(s): Nieves Martínez-Peinado, Álvaro Lorente-Macías, Alejandro García-Salguero, Nuria Cortés-Serra, Ángel Fenollar-Collado, Albert Ros-Lucas, Joaquím Gascón, María Jesús Pinazo, Ignacio J. Molina, Asier Unciti‐Broceta, Juan José Díaz‐Mochón, María José Pineda de las Infantas y Villatoro, Luís Izquierdo, Julio Alonso-Padilla
Software Mentions: 1
Published: over 4 years ago

10.3390/ph14030265

Novel Selective IDO1 Inhibitors with Isoxazolo[5,4-d]pyrimidin-4(5H)-one Scaffold
Cited by: 4
Author(s): Ana Dolšak, Tomaž Bratkovič, Larisa Mlinarič, Eva Ogorevc, Urban Švajger, Stanislav Gobec, Matej Sova
Software Mentions: 1
Published: over 4 years ago

10.3390/ph13060118

Design and Development of Novel Urea, Sulfonyltriurea, and Sulfonamide Derivatives as Potential Inhibitors of Sphingosine Kinase 1
Cited by: 12
Author(s): Sonam Roy, Amarjyoti Das Mahapatra, Taj Mohammad, Preeti Gupta, Mohamed F. Alajmi, Afzal Hussain, Tabish Rehman, Bhaskar Datta, Md. Imtaiyaz Hassan
Software Mentions: 1
Published: over 5 years ago

10.3390/ph14060572

Antimicrobial Activity of a Library of Thioxanthones and Their Potential as Efflux Pump Inhibitors
Cited by: 10
Author(s): Fernando Durães, Andreia Palmeira, B. Nieves Cruz, Joana Freitas-Silva, Nikoletta Szemerédi, Luı́s Gales, Paulo Martins da Costa, Fernando Remião, Renata Silva, Madalena Pinto, Gabriella Spengler, Emı́lia Sousa
Software Mentions: 1
Published: over 4 years ago

10.3390/ph13100277

Papain-Like Proteases as Coronaviral Drug Targets: Current Inhibitors, Opportunities, and Limitations
Cited by: 33
Author(s): Anastasiia I. Petushkova, Andrey A. Zamyatnin
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pgen.1005518

Autophosphorylation of the Bacterial Tyrosine-Kinase CpsD Connects Capsule Synthesis with the Cell Cycle in Streptococcus pneumoniae
Cited by: 51
Author(s): Julien Nourikyan, Morten Kjos, Chryslène Mercy, Caroline Cluzel, Cécile Morlot, Marie‐Françoise Noirot‐Gros, Sébastien Guiral, Jean‐Pierre Lavergne, Jan‐Willem Veening, Christophe Grangeasse
Software Mentions: 1
Published: about 10 years ago

10.1371/journal.pgen.1000579

A Missense Mutation in the SERPINH1 Gene in Dachshunds with Osteogenesis Imperfecta
Cited by: 113
Author(s): Cord Drögemüller, Doreen Becker, Adrian Brunner, Bianca Haase, Patrick R. Kircher, Frank Seeliger, Michael Fehr, Ulrich Baumann, Kerstin Lindblad‐Toh, Tosso Leeb
Software Mentions: 1
Published: over 16 years ago

10.1371/journal.pgen.1003222

Admixture Mapping in Lupus Identifies Multiple Functional Variants within IFIH1 Associated with Apoptosis, Inflammation, and Autoantibody Production
Cited by: 102
Author(s): Julio E. Molineros, Amit K. Maiti, Celi Sun, Loren L. Looger, Shizhong Han, Xana Kim-Howard, Stuart B. Glenn, Adam J. Adler, Jennifer A. Kelly, Timothy B. Niewold, Gary S. Gilkeson, Elizabeth E. Brown, Graciela S. Alarcón, Jeffrey C. Edberg, Michelle Petri, Rosalind Ramsey‐Goldman, John D. Reveille, Luis M. Vilá, Barry I. Freedman, Betty P. Tsao, Lindsey A. Criswell, Chaim O. Jacob, Jason H. Moore, Timothy J. Vyse, Carl Langefeld, Joel M. Guthridge, Patrick M. Gaffney, Kathy L. Moser, R. Hal Scofield, Marta E. Alarcón‐Riquelme, Scott M. Williams, Joan T. Merrill, Judith A. James, Kenneth M. Kaufman, Robert P. Kimberly, John B. Harley, Swapan K. Nath
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pgen.1005565

The Dedicated Chaperone Acl4 Escorts Ribosomal Protein Rpl4 to Its Nuclear Pre-60S Assembly Site
Cited by: 56
Author(s): Benjamin Pillet, Juan José García-Gómez, Patrick Pausch, Laurent Falquet, Gert Bange, Jesús de la Cruz, Dieter Kressler
Software Mentions: 1
Published: about 10 years ago

10.1371/journal.pgen.1006735

Parallel reorganization of protein function in the spindle checkpoint pathway through evolutionary paths in the fitness landscape that appear neutral in laboratory experiments
Cited by: 10
Author(s): Alex N Nguyen Ba, Bob Strome, Selma Osman, Elizabeth-Ann Legere, Taraneh Zarin, Alan M. Moses
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pgen.1004991

Interaction between the tRNA-Binding and C-Terminal Domains of Yeast Gcn2 Regulates Kinase Activity In Vivo
Cited by: 31
Author(s): Lageix Sebastien, Jinwei Zhang, Stefan Rothenburg, Alan G. Hinnebusch
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pgen.1008294

Ddc2ATRIP promotes Mec1ATR activation at RPA-ssDNA tracts
Cited by: 15
Author(s): Himadri Biswas, Greicy H. Goto, Weibin Wang, Patrick Sung, Katsunori Sugimoto
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pgen.1006287

The Anti-sigma Factor RsiV Is a Bacterial Receptor for Lysozyme: Co-crystal Structure Determination and Demonstration That Binding of Lysozyme to RsiV Is Required for σV Activation
Cited by: 31
Author(s): Jessica L. Hastie, Kyle Williams, Lindsey L. Bohr, Jon C. D. Houtman, Lokesh Gakhar, Craig D. Ellermeier
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pgen.1004457

Nucleosomes Shape DNA Polymorphism and Divergence
Cited by: 32
Author(s): Sasha A. Langley, Gary H. Karpen, Charles H. Langley
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pgen.1009316

Natural variations of TFIIAγ gene and LOB1 promoter contribute to citrus canker disease resistance in Atalantia buxifolia
Cited by: 11
Author(s): Xiaomei Tang, Xia Wang, Yue Huang, Ling Ma, Xiaolin Jiang, Muhammad Junaid Rao, Yuantao Xu, Ping Yin, Meng Yuan, Xiuxin Deng, Qiang Xu
Software Mentions: 1
Published: almost 5 years ago

10.1371/journal.pgen.1004326

Enhanced Interaction between Pseudokinase and Kinase Domains in Gcn2 stimulates eIF2α Phosphorylation in Starved Cells
Cited by: 23
Author(s): Lageix Sebastien, Stefan Rothenburg, Thomas E. Dever, Alan G. Hinnebusch
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pgen.1002244

Separation of Recombination and SOS Response in Escherichia coli RecA Suggests LexA Interaction Sites
Cited by: 68
Author(s): Anbu Karani Adikesavan, Panagiotis Katsonis, David C. Marciano, Rhonald C. Lua, Christophe Herman, Olivier Lichtarge
Software Mentions: 1
Published: about 14 years ago

10.1371/journal.pgen.1008092

Amino acid signatures of HLA Class-I and II molecules are strongly associated with SLE susceptibility and autoantibody production in Eastern Asians
Cited by: 35
Author(s): Julio E. Molineros, Loren L. Looger, Kwang-Woo Kim, Yukinori Okada, Chikashi Terao, Celi Sun, Xu‐jie Zhou, Prithvi Raj, Yuta Kochi, Akari Suzuki, Shuji Akizuki, Shuichiro Nakabo, So Young Bang, Hye Soon Lee, Young Mo Kang, Chang Hee Suh, Won Tae Chung, Yong Bum Park, Jung Yoon Choe, Seung Cheol Shim, Shin Seok Lee, Xiaoxia Zuo, Kazuhiko Yamamoto, Quan Zhen Li, Nan Shen, Lauren L. Porter, John B. Harley, Kek Heng Chua, Hong Zhang, Edward K. Wakeland, Betty P. Tsao, Sang Cheol Bae, Swapan K. Nath
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pgen.1000292

Evolutionary Diversification of Plant Shikimate Kinase Gene Duplicates
Cited by: 50
Author(s): Geoffrey Fucile, Shannon B. Falconer, Dinesh Christendat
Software Mentions: 1
Published: almost 17 years ago

10.1371/journal.pgen.1000368

Adaptive Mutations in the JC Virus Protein Capsid Are Associated with Progressive Multifocal Leukoencephalopathy (PML)
Cited by: 117
Author(s): Shamil Sunyaev, Alexey A. Lugovskoy, Kenneth J. Simon, Leonid Gorelik
Software Mentions: 1
Published: almost 17 years ago

10.1371/journal.pgen.1008331

The steroid hormone 20-hydroxyecdysone binds to dopamine receptor to repress lepidopteran insect feeding and promote pupation
Cited by: 55
Author(s): Xin-Le Kang, Junying Zhang, Di Wang, Yu-Meng Zhao, Xiangxin Han, Jinxing Wang, Xiao‐Fan Zhao
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pgen.1001000

A Mutation in the Mitochondrial Fission Gene Dnm1l Leads to Cardiomyopathy
Cited by: 121
Author(s): Houman Ashrafian, Louise Docherty, Vincenzo C. Leo, Christopher Towlson, Monica Neilan, Violetta Steeples, Craig A. Lygate, Tertius Hough, Stuart Townsend, Debbie Williams, Sara Wells, Dominic P. Norris, Sarah Glyn-Jones, John M. Land, Ivana Barbaric, Zuzanne Lalanne, Paul Denny, Dorota Szumska, Shoumo Bhattacharya, Julian L. Griffin, Iain P. Hargreaves, Narcís Fernández-Fuentes, Michael Cheeseman, Hugh Watkins, T. Neil Dear
Software Mentions: 1
Published: over 15 years ago

10.1371/journal.pgen.1005720

Co-evolution of Bacterial Ribosomal Protein S15 with Diverse mRNA Regulatory Structures
Cited by: 14
Author(s): Betty L. Slinger, Hunter Newman, Young Han Lee, Shermin Pei, Michelle M. Meyer
Software Mentions: 1
Published: almost 10 years ago

10.1371/journal.pmed.0030485

Epidermal Growth Factor Receptor Activation in Glioblastoma through Novel Missense Mutations in the Extracellular Domain
Cited by: 306
Author(s): Jeffrey C. Lee, Igor Vivanco, Rameen Beroukhim, Julie H. Huang, Whei Feng, Ralph DeBiasi, Koji Yoshimoto, Jennifer C. King, Phioanh L. Nghiemphu, Yuki Yuza, Qingqing Xu, Heidi Greulich, Roman K. Thomas, J. Guillermo Páez, Timothy C. Peck, David Linhart, Karen A. Glatt, Gad Getz, Robert C. Onofrio, Liuda Ziaugra, Ross L. Levine, Stacey Gabriel, Tomohiro Kawaguchi, Keith O'Neill, Haumith Khan, Linda M. Liau, Stanley F. Nelson, P. Nagesh Rao, Paul S. Mischel, Russell O. Pieper, Timothy F. Cloughesy, Daniel J. Leahy, William R. Sellers, Charles L. Sawyers, Matthew Meyerson, Ingo K. Mellinghoff
Software Mentions: 1
Published: almost 19 years ago

10.1371/journal.pntd.0004365

Leishmania infantum Asparagine Synthetase A Is Dispensable for Parasites Survival and Infectivity
Cited by: 8
Author(s): Joana Faria, Inês Loureiro, Nuno Santarém, Sandra Macedo-Ribeiro, Joana Tavares, Anabela Cordeiro-da-Silva
Software Mentions: 1
Published: almost 10 years ago

10.1371/journal.pntd.0003430

Ribose 5-Phosphate Isomerase B Knockdown Compromises Trypanosoma brucei Bloodstream Form Infectivity
Cited by: 18
Author(s): Inês Loureiro, Joana Faria, Christine Clayton, Sandra Macedo-Ribeiro, Nuno Santarém, Nilanjan Roy, Anabela Cordeiro-da-Siva, Joana Tavares
Software Mentions: 1
Published: almost 11 years ago

10.1371/journal.pntd.0001559

Biochemical, Mutational and In Silico Structural Evidence for a Functional Dimeric Form of the Ornithine Decarboxylase from Entamoeba histolytica
Cited by: 8
Author(s): . Preeti, Satya Tapas, Pravindra Kumar, Rentala Madhubala, Shailly Tomar
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pntd.0006969

Identification and binding mode of a novel Leishmania Trypanothione reductase inhibitor from high throughput screening
Cited by: 40
Author(s): Lorenzo Turcano, Esther Torrente, Antonino Missineo, Matteo Andreini, Marina Gramiccia, Trentina Di Muccio, Ilaria Genovese, Annarita Fiorillo, Steven J. Harper, Alberto Bresciani, Gianni Colotti, Andrea Ilari
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.pntd.0002492

Exploring the Trypanosoma brucei Hsp83 Potential as a Target for Structure Guided Drug Design
Cited by: 36
Author(s): J.C. Pizarro, T. Hills, Guillermo Senisterra, A.K. Wernimont, Claire J. Mackenzie, Neil R. Norcross, Michael A. J. Ferguson, Paul G. Wyatt, Ian H. Gilbert, Raymond Hui
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pntd.0008517

An iterative process produces oxamniquine derivatives that kill the major species of schistosomes infecting humans
Cited by: 10
Author(s): Meghan A. Guzman, Anastasia R. Rugel, Reid S. Tarpley, Sevan N. Alwan, Frédéric D. Chevalier, Dmytro Kovalskyy, Xiaoguang Cao, S. Holloway, Timothy J. Anderson, Alexander B. Taylor, Stanton F. McHardy, Philip T. LoVerde
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pntd.0002947

Simplagrin, a Platelet Aggregation Inhibitor from Simulium nigrimanum Salivary Glands Specifically Binds to the Von Willebrand Factor Receptor in Collagen and Inhibits Carotid Thrombus Formation In Vivo
Cited by: 12
Author(s): Andrezza Campos Chagas, Peter McPhie, Hong San, David L. Narum, Karine Reiter, Fuyuki Tokomasu, Fábio André Brayner, Luíz Carlos Alves, José M. C. Ribeiro, Eric Calvo
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pntd.0005217

In vivo Distribution and Clearance of Purified Capsular Polysaccharide from Burkholderia pseudomallei in a Murine Model
Cited by: 12
Author(s): Teerapat Nualnoi, Adam Kirosingh, Sujata G. Pandit, Peter Thorkildson, Paul J. Brett, Mary N. Burtnick, David P. AuCoin
Software Mentions: 1
Published: almost 9 years ago

10.1371/journal.pntd.0002482

On the Three-Finger Protein Domain Fold and CD59-Like Proteins in Schistosoma mansoni
Cited by: 26
Author(s): Leonardo P. Farias, Greice Krautz‐Peterson, Cibele Aparecida Tararam, Bogar O. Araujo-Montoya, Tatiana R. Fraga, Henrique K. Rofatto, Floriano Paes Silva, Lourdes Isaac, Akram A. Da’dara, R. A. Wilson, Charles B. Shoemaker, Luciana C. C. Leite
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pntd.0000356

Discovery of a Non-Peptidic Inhibitor of West Nile Virus NS3 Protease by High-Throughput Docking
Cited by: 70
Author(s): Dariusz Ekonomiuk, Xun‐Cheng Su, Kiyoshi Ozawa, Christophe Bodenreider, Siew Pheng Lim, Zheng Yin, Thomas H. Keller, David Beer, Viral Patel, Gottfried Otting, Amedeo Caflisch, Danzhi Huang
Software Mentions: 1
Published: almost 17 years ago

10.1371/journal.pntd.0003903

An Epitope-Substituted DNA Vaccine Improves Safety and Immunogenicity against Dengue Virus Type 2
Cited by: 18
Author(s): Chung-Tao Tang, Pi-Chun Li, I-Ju Liu, Minfu Liao, Chiung-Yi Chiu, Day‐Yu Chao, Han‐Chung Wu
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pntd.0003920

Human IgG1 Responses to Surface Localised Schistosoma mansoni Ly6 Family Members Drop following Praziquantel Treatment
Cited by: 17
Author(s): Iain W. Chalmers, Colin M. Fitzsimmons, Martha Brown, Christine Pierrot, Frances M. Jones, Jakub Wawrzyniak, Narcís Fernández-Fuentes, Edridah M. Tukahebwa, David W. Dunne, Jamal Khalife, Karl F. Hoffmann
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pntd.0007915

Identification and validation of specific B-cell epitopes of hantaviruses associated to hemorrhagic fever and renal syndrome
Cited by: 12
Author(s): Fernando de Paiva Conte, Bianca Corrêa Tinoco, Thiago Santos Chaves, Renata Carvalho de Oliveira, Janaina Figueira Mansur, Ronaldo Mohana‐Borges, Elba Regina Sampaio de Lemos, Patrícia Cristina da Costa Neves, Rodrigo Nunes Rodrigues-da-Silva
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pntd.0005720

Essential multimeric enzymes in kinetoplastid parasites: A host of potentially druggable protein-protein interactions
Cited by: 4
Author(s): Leah M. Wachsmuth, Meredith G. Johnson, Jason Gavenonis
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pntd.0008458

Instability of aquaglyceroporin (AQP) 2 contributes to drug resistance in Trypanosoma brucei
Cited by: 9
Author(s): Juan F. Quintana, Juan A. Bueren-Calabuig, Fabio Zuccotto, Harry P. de Koning, David Horn, Mark C. Field
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pntd.0002837

Discovery and Confirmation of Ligand Binding Specificities of the Schistosoma japonicum Polarity Protein Scribble
Cited by: 5
Author(s): Pengfei Cai, Yi Mu, Xiangshu Piao, Nan Hou, Shuai Liu, Youhe Gao, Heng Wang, Qijun Chen
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pntd.0007687

Intestinal UDP-glucuronosyltransferase as a potential target for the treatment and prevention of lymphatic filariasis
Cited by: 10
Author(s): Alexander F. Flynn, Michael Joyce, Roger R. Taylor, Sasisekhar Bennuru, Alyssa R Lindrose, Spencer L Sterling, C. Paul Morris, Thomas B. Nutman, Edward Mitre
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pone.0148174

On Nature’s Strategy for Assigning Genetic Code Multiplicity
Cited by: 16
Author(s): Simone Gardini, Sara Cheli, Silvia Baroni, Gabriele Di Lascio, Guido Mangiavacchi, Nicholas Micheletti, Carmen Luigia Monaco, L. Savini, Davide Alocci, Stefano Mangani, Neri Niccolai
Software Mentions: 1
Published: almost 10 years ago

10.1371/journal.pone.0161663

Amlexanox Blocks the Interaction between S100A4 and Epidermal Growth Factor and Inhibits Cell Proliferation
Cited by: 14
Author(s): Ching Chang Cho, Ruey Hwang Chou, Chin Yu
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0187845

Structural and kinetic considerations on the catalysis of deoxyarbutin by tyrosinase
Cited by: 7
Author(s): Antonio García‐Jiménez, José A. Teruel, Pedro Antonio Garcı́a-Ruiz, Adrian Saura‐Sanmartin, José Berná, Francisco Garcı́a-Cánovas, José Neptuno Rodríguez-López
Software Mentions: 1
Published: about 8 years ago

10.1371/journal.pone.0068863

The N276 Glycosylation Site Is Required for HIV-1 Neutralization by the CD4 Binding Site Specific HJ16 Monoclonal Antibody
Cited by: 43
Author(s): Sunita S. Balla-Jhagjhoorsingh, Davide Corti, Leo Heyndríckx, Elisabeth Willems, Katleen Vereecken, David A. Davis, Guido Vanham
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0033698

Structural Basis of Ets1 Cooperative Binding to Widely Separated Sites on Promoter DNA
Cited by: 18
Author(s): Nigar D. Babayeva, Oxana I. Baranovskaya, T.H. Tahirov
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0116514

Novel ENAM and LAMB3 Mutations in Chinese Families with Hypoplastic Amelogenesis Imperfecta
Cited by: 24
Author(s): Xin Wang, Yuming Zhao, Yue Yuan, Man Qin
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0249905

Inhibition of CMP-sialic acid transport by endogenous 5-methyl CMP
Cited by: 2
Author(s): Shivani Ahuja, James Cahill, Kimberly Hartfield, Matthew R. Whorton
Software Mentions: 1
Published: over 4 years ago

10.1371/journal.pone.0069538

Structure of the SCAN Domain of Human Paternally Expressed Gene 3 Protein
Cited by: 10
Author(s): V. Rimsa, T.C. Eadsforth, William N. Hunter
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0235642

Characterization of two family AA9 LPMOs from Aspergillus tamarii with distinct activities on xyloglucan reveals structural differences linked to cleavage specificity
Cited by: 24
Author(s): Antonielle Vieira Monclaro, Dejan M. Petrović, Gabriel Sérgio Costa Alves, Marcos M. C. Costa, G. E. O. Midorikawa, Robert G. Miller, Edivaldo Ximenes Ferreira Filho, Vincent G. H. Eijsink, Anikó Várnai
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0000531

Accurate Reproduction of 161 Small-Molecule Complex Crystal Structures using the EUDOC Program: Expanding the Use of EUDOC to Supramolecular Chemistry
Cited by: 13
Author(s): Qi Wang, Yuan Ping Pang
Software Mentions: 1
Published: over 18 years ago

10.1371/journal.pone.0031677

Investigating the Structural Impacts of I64T and P311S Mutations in APE1-DNA Complex: A Molecular Dynamics Approach
Cited by: 43
Author(s): George Priya Doss C, N. Nagasundaram
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0032805

Inflammation-Associated Nitrotyrosination Affects TCR Recognition through Reduced Stability and Alteration of the Molecular Surface of the MHC Complex
Cited by: 18
Author(s): Chaithanya Madhurantakam, Adil Doğanay Duru, T. Sandalova, John R. Webb, Adnane Achour
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0137952

Methylatable Signaling Helix Coordinated Inhibitory Receiver Domain in Sensor Kinase Modulates Environmental Stress Response in Bacillus Cereus
Cited by: 5
Author(s): Jung-Chi Chen, Jyung-Hurng Liu, Duen-Wei Hsu, Jinian Shu, Chien‐Yen Chen, Chien‐Cheng Chen
Software Mentions: 1
Published: about 10 years ago

10.1371/journal.pone.0025312

Determinants of Nucleotide-Binding Selectivity of Malic Enzyme
Cited by: 10
Author(s): Ju-Yi Hsieh, Mengchun Chen, Hui‐Chih Hung
Software Mentions: 1
Published: about 14 years ago

10.1371/journal.pone.0169627

The Arginine Pairs and C-Termini of the Sso7c4 from Sulfolobus solfataricus Participate in Binding and Bending DNA
Cited by: 4
Author(s): Bo Lin, Chin Yu Chen, Chih-Hsien Huang, Tzu Ping Ko, Cheng‐Hung Chiang, Kuan-Fu Lin, Yuan-Chih Chang, Po‐Yen Lin, Hui Lien Tsai, Andrew H.-J. Wang
Software Mentions: 1
Published: almost 9 years ago

10.1371/journal.pone.0123441

Native Variants of the MRB1 Complex Exhibit Specialized Functions in Kinetoplastid RNA Editing
Cited by: 19
Author(s): Bhaskara Reddy Madina, Vijoy Kumar, Blaine H. M. Mooers, Jorge Cruz‐Reyes
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0003685

Evolutionary Patterning: A Novel Approach to the Identification of Potential Drug Target Sites in Plasmodium falciparum
Cited by: 13
Author(s): Pierre Durand, Kubendran Naidoo, Thérèsa L. Coetzer
Software Mentions: 1
Published: about 17 years ago

10.1371/journal.pone.0046881

Role of the NC-Loop in Catalytic Activity and Stability in Lipase from Fervidobacterium changbaicum
Cited by: 15
Author(s): Binchun Li, Guangyu Yang, Lie Wu, Yan Feng
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0044480

FragIt: A Tool to Prepare Input Files for Fragment Based Quantum Chemical Calculations
Cited by: 36
Author(s): Casper Steinmann, Mikael W. Ibsen, Anne S. Hansen, Jan H. Jensen
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0102389

The Structure of the TFIIH p34 Subunit Reveals a Von Willebrand Factor A Like Fold
Cited by: 10
Author(s): Dominik Schmitt, Jochen Kuper, Agnes Elias, Caroline Kisker
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0162344

Gonadotropins in the Russian Sturgeon: Their Role in Steroid Secretion and the Effect of Hormonal Treatment on Their Secretion
Cited by: 28
Author(s): Sue S. Yom, Lian Hollander-Cohen, Joseph Aizen, Benjamin Böhm, Michal Shpilman, Matan Golan, Avshalom Hurvitz, Gad Degani, Berta Levavi‐Sivan
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0084902

Adaptation of an L-Proline Adenylation Domain to Use 4-Propyl-L-Proline in the Evolution of Lincosamide Biosynthesis
Cited by: 19
Author(s): Stanislav Kadlčík, Tomáš Kučera, Dominika Chalupská, Radek Gažák, Markéta Koběrská, Dana Ulanová, Jan Kopecký, Eva Kutějová, Lucie Najmanová, Jiřı́ Janata
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pone.0015258

Modifying the Substrate Specificity of Carcinoscorpius rotundicauda Serine Protease Inhibitor Domain 1 to Target Thrombin
Cited by: 5
Author(s): Pankaj K. Giri, Xuhua Tang, Saravanan Thangamani, Rajesh T. Shenoy, Jeak Ling Ding, Kunchithapadam Swaminathan, J. Sivaraman
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pone.0136509

Designing Second Generation Anti-Alzheimer Compounds as Inhibitors of Human Acetylcholinesterase: Computational Screening of Synthetic Molecules and Dietary Phytochemicals
Cited by: 24
Author(s): Hafsa Amat-ur-Rasool, Mehboob Ahmed
Software Mentions: 1
Published: about 10 years ago

10.1371/journal.pone.0052848

A Novel B-Cell Epitope Identified within Mycobacterium tuberculosis CFP10/ESAT-6 Protein
Cited by: 11
Author(s): Hua Yang, Haizhen Chen, Liu Z, Hui Ma, Lianhua Qin, Ruiliang Jin, Ruijuan Zheng, Yonghong Feng, Zhenling Cui, Jie Wang, Jinming Liu, Zhongyi Hu
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0025365

Structural Insights into the Mechanism of Protein O-Fucosylation
Cited by: 84
Author(s): Erandi Lira‐Navarrete, Jessika Valero‐González, Raquel Villanueva, Marta Martínez‐Júlvez, Tomás Tejero, Pedro Merino, Santosh Panjikar, R. Hurtado‐Guerrero
Software Mentions: 1
Published: about 14 years ago

10.1371/journal.pone.0020535

Construction of Chimeric Dual-Chain Avidin by Tandem Fusion of the Related Avidins
Cited by: 7
Author(s): Tiina A. Riihimäki, Sampo Kukkurainen, Suvi Varjonen, Jarno Hörhä, Thomas K.M. Nyholm, Markku S. Kulomaa, Vesa P. Hytönen
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0012591

Reassortant between Human-Like H3N2 and Avian H5 Subtype Influenza A Viruses in Pigs: A Potential Public Health Risk
Cited by: 22
Author(s): Cong Yu, Guangmei Wang, Guan Zhang, Shuang Chang, Quanpeng Zhang, Genhua Yang, Weili Wang, Qing-Feng Meng, Weiming Ren, Chunfeng Wang, Zhuang Ding
Software Mentions: 1
Published: about 15 years ago

10.1371/journal.pone.0102407

Annexin5 Plays a Vital Role in Arabidopsis Pollen Development via Ca2+-Dependent Membrane Trafficking
Cited by: 37
Author(s): Jingen Zhu, Xianghua Wu, Shunjie Yuan, Dong Qian, Qiong Nan, Lizhe An, Yun Xiang
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0059411

Multiple Roles of the Extracellular Vestibule Amino Acid Residues in the Function of the Rat P2X4 Receptor
Cited by: 17
Author(s): Milos B. Rokic, Stanko S. Stojilković, Vojtěch Vávra, Pavlo Kuzyk, Vendula Tvrdoňová, Hana Zemková
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0059873

The Influence of 150-Cavity Binders on the Dynamics of Influenza A Neuraminidases as Revealed by Molecular Dynamics Simulations and Combined Clustering
Cited by: 18
Author(s): Kyle T. Greenway, Eric B. LeGresley, B. Mario Pinto
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0011708

Adhesion and Degranulation Promoting Adapter Protein (ADAP) Is a Central Hub for Phosphotyrosine-Mediated Interactions in T Cells
Cited by: 36
Author(s): Marc Sylvester, Stefanie Kliche, Sabine S. Lange, Sabine Geithner, Clementine Klemm, Andreas Schlösser, Arndt Großmann, Ulrich Stelzl, Burkhart Schraven, Eberhard Krause, Christian Freund
Software Mentions: 1
Published: over 15 years ago

10.1371/journal.pone.0192512

A single β-octyl glucoside molecule induces HIV-1 Nef dimer formation in the absence of partner protein binding
Cited by: 6
Author(s): Mingqin Wu, John J. Alvarado, Corinne E. Augelli‐Szafran, Roger G. Ptak, Thomas E. Smithgall
Software Mentions: 1
Published: almost 8 years ago

10.1371/journal.pone.0108607

Molecular Dynamics of CYP2D6 Polymorphisms in the Absence and Presence of a Mechanism-Based Inactivator Reveals Changes in Local Flexibility and Dominant Substrate Access Channels
Cited by: 23
Author(s): Parker W. de Waal, Kyle F. Sunden, Laura Lowe Furge
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pone.0023507

Molecular Basis for the Recognition of Adenomatous Polyposis Coli by the Discs Large 1 Protein
Cited by: 26
Author(s): Zhenyi Zhang, Hua Li, Leyi Chen, Xingyu Lu, Jian Zhang, Ping Xu, Kui Lin, Geng Wu
Software Mentions: 1
Published: about 14 years ago

10.1371/journal.pone.0163816

Structural Insights into the Methylation of C1402 in 16S rRNA by Methyltransferase RsmI
Cited by: 8
Author(s): Mengchen Zhao, Heng Zhang, Guangfeng Liu, Li Wang, Jian Wang, Zengqiang Gao, Yuhui Dong, Linbo Zhang, Yong Gong
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0108245

Crystal Structure of Patatin-17 in Complex with Aged and Non-Aged Organophosphorus Compounds
Cited by: 17
Author(s): Sanjeeva J. Wijeyesakere, Rudy J. Richardson, Jeanne A. Stuckey
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pone.0050011

Influence of Structural Symmetry on Protein Dynamics
Cited by: 14
Author(s): Yasuhiro Matsunaga, Ryotaro Koike, Motonori Ota, J.R.H. Tame, Akinori Kidera
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0034541

Identification and Functional Characterisation of Novel Glucokinase Mutations Causing Maturity-Onset Diabetes of the Young in Slovakia
Cited by: 22
Author(s): Lucia Valentínová, Nicola L. Beer, Juraj Staník, Nicholas D. Tribble, Martijn van de Bunt, M Hučková, Amy Barrett, I Klimeš, Daniela Gašperíková, Anna L. Gloyn
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0071657

Soluble Variants of Human Recombinant Glutaminyl Cyclase
Cited by: 4
Author(s): Cristiana Castaldo, Silvia Ciambellotti, Raquel de Pablo-Latorre, Daniela Lalli, Valentina Porcari, Paola Turano
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0126725

Corosolic Acid Inhibits Hepatocellular Carcinoma Cell Migration by Targeting the VEGFR2/Src/FAK Pathway
Cited by: 40
Author(s): Ku Chung-Yu, Wang Ying-Ren, Lin H, Shao‐Chun Lu, Jung‐Yaw Lin
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0001926

Alignment of Non-Covalent Interactions at Protein-Protein Interfaces
Cited by: 32
Author(s): Hongbo Zhu, Iris E. Sommer, Thomas Lengauer, Francisco S. Domingues
Software Mentions: 1
Published: over 17 years ago

10.1371/journal.pone.0123303

Improved Catenated Structures of Bovine Peroxiredoxin III F190L Reveal Details of Ring-Ring Interactions and a Novel Conformational State
Cited by: 9
Author(s): Zhenbo Cao, Donna P. McGow, Colin Shepherd, J. Gordon Lindsay
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0001310

Exchanging Murine and Human Immunoglobulin Constant Chains Affects the Kinetics and Thermodynamics of Antigen Binding and Chimeric Antibody Autoreactivity
Cited by: 38
Author(s): Marcela Torres, Narcís Fernández-Fuentes, András Fiser, Arturo Casadevall
Software Mentions: 1
Published: almost 18 years ago

10.1371/journal.pone.0052225

Structural Insights into Cellulolytic and Chitinolytic Enzymes Revealing Crucial Residues of Insect β-N-acetyl-D-hexosaminidase
Cited by: 16
Author(s): Tian Liu, Yong Zhou, Lei Chen, Wei Chen, L. Liu, Xu Shen, Wenqing Zhang, Jianzhen Zhang, Qing Yang
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0039261

Intrinsically Unstructured Domain 3 of Hepatitis C Virus NS5A Forms a “Fuzzy Complex” with VAPB-MSP Domain Which Carries ALS-Causing Mutations
Cited by: 40
Author(s): Garvita Gupta, Haina Qin, Jianxing Song
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0133372

Structure and Function in Homodimeric Enzymes: Simulations of Cooperative and Independent Functional Motions
Cited by: 24
Author(s): Stephen A. Wells, Marc W. van der Kamp, John D. McGeagh, Adrian J. Mulholland
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0022779

A Single Amino Acid of Human Immunodeficiency Virus Type 2 Capsid Protein Affects Conformation of Two External Loops and Viral Sensitivity to TRIM5α
Cited by: 21
Author(s): Tadashi Miyamoto, Masahiro Yokoyama, Ken Kono, Tatsuo Shioda, Hironori Sato, Emi E. Nakayama
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0074347

Allosteric Coupling between the Intracellular Coupling Helix 4 and Regulatory Sites of the First Nucleotide-binding Domain of CFTR
Cited by: 29
Author(s): Jennifer E. Dawson, Patrick Farber, Julie D. Forman-Kay
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pone.0057345

Solution Structure of the QUA1 Dimerization Domain of pXqua, the Xenopus Ortholog of Quaking
Cited by: 3
Author(s): Mohsin Ali, R. William Broadhurst
Software Mentions: 1
Published: over 12 years ago