10.1371/journal.pone.0238147

Imidazole-rich copper peptides as catalysts in xenobiotic degradation
Cited by: 2
Author(s): Sharifa Zaithun Begum, Nurul Shairah Mohd Nizam, Azira Muhamad, Mohd Izham Saiman, Karen A. Crouse, Mohd Basyaruddin Abdul Rahman
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0118606

The Crystal Structure and Small-Angle X-Ray Analysis of CsdL/TcdA Reveal a New tRNA Binding Motif in the MoeB/E1 Superfamily
Cited by: 9
Author(s): Miguel López-Estepa, Ana Ardá, Martin Savko, Adam Round, William Shepard, Marta Bruix, Miquel Coll, Francisco Fernández, Jesús Jiménez‐Barbero, M. Cristina Vega
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pone.0069031

Structural and Functional Perturbation of Giardia lamblia Triosephosphate Isomerase by Modification of a Non-Catalytic, Non-Conserved Region
Cited by: 20
Author(s): Gloria Hernández-Alcantara, Alfredo Torres‐Larios, Sergio Enríquez-Flores, Itzhel García-Torres, Adriana Castillo-Villanueva, Sara T. Méndez, Ignacio De la Mora-De la Mora, Saúl Gómez-Manzo, Angélica Torres-Arroyo, Gabriel López-Velázquez, Horacio Reyes‐Vivas, Jesús Oria-Hernández
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0151246

The Sequence and Structure Determine the Function of Mature Human miRNAs
Cited by: 35
Author(s): Katarzyna Rolle, Monika Piwecka, Agnieszka Belter, Dariusz Wawrzyniak, Jaroslaw Jeleniewicz, Mirosława Z. Barciszewska, Jan Barciszewski
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0009186

Structural and Functional Restraints on the Occurrence of Single Amino Acid Variations in Human Proteins
Cited by: 39
Author(s): Sungsam Gong, Tom L. Blundell
Software Mentions: 1
Published: over 16 years ago

10.1371/journal.pone.0063779

Structural Investigation of a Novel N-Acetyl Glucosamine Binding Chi-Lectin Which Reveals Evolutionary Relationship with Class III Chitinases
Cited by: 21
Author(s): Dipak N. Patil, Manali Datta, Aditya Dev, Sonali Dhindwal, Nasib Singh, Pushpanjali Dasauni, Suman Kundu, Ashwani Sharma, Shailly Tomar, Pravindra Kumar
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0182147

Evidence for a shape-based recognition of odorants in vivo in the human nose from an analysis of the molecular mechanism of lily-of-the-valley odorants detection in the Lilial and Bourgeonal family using the C/Si/Ge/Sn switch strategy
Cited by: 8
Author(s): Steffen Wolf, Lian Gelis, Steffen Dörrich, Hanns Hatt, Philip Kraft
Software Mentions: 1
Published: almost 9 years ago

10.1371/journal.pone.0047886

Structural Characterization of the Enzymes Composing the Arginine Deiminase Pathway in Mycoplasma penetrans
Cited by: 17
Author(s): Pablo Gallego, Raquel Planell, J. Benach, Enrique Querol, Josep A. Pérez-Pons, David Reverter
Software Mentions: 1
Published: almost 14 years ago

10.1371/journal.pone.0036714

Chitin Binding Proteins Act Synergistically with Chitinases in Serratia proteamaculans 568
Cited by: 45
Author(s): Pallinti Purushotham, P. V. Parvati Sai Arun, Jogadhenu S. S. Prakash, Appa Rao Podile
Software Mentions: 1
Published: about 14 years ago

10.1371/journal.pone.0162115

Structural Insight into the Critical Role of the N-Terminal Region in the Catalytic Activity of Dual-Specificity Phosphatase 26
Cited by: 6
Author(s): Eun-Young Won, Sang-Ok Lee, Dong Hwa Lee, Daeyoup Lee, Kwang‐Hee Bae, Sang Chul Lee, Seung Jun Kim, Seung‐Wook Chi
Software Mentions: 1
Published: almost 10 years ago

10.1371/journal.pone.0124878

Acyclovir Has Low but Detectable Influence on HLA-B*57:01 Specificity without Inducing Hypersensitivity
Cited by: 9
Author(s): Imir G. Metushi, Amanda Wriston, Priyanka Banerjee, Björn-Oliver Gohlke, Ann M. English, Andrew Lucas, Carrie Moore, John Sidney, Søren Buus, David A. Ostrov, S. Mallal, Elizabeth Phillips, Jeffrey Shabanowitz, Donald F. Hunt, Robert Preißner, Bjoern Peters
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pone.0094126

Genome-Wide Identification, Evolution and Expression Analysis of mTERF Gene Family in Maize
Cited by: 46
Author(s): Yanxin Zhao, Manjun Cai, Xiaobo Zhang, Yurong Li, Jianhua Zhang, Hailiang Zhao, Fei Kong, Yanyan Zheng, Fazhan Qiu
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0008586

Structure of the hDmc1-ssDNA Filament Reveals the Principles of Its Architecture
Cited by: 20
Author(s): Andrei L. Okorokov, Yuriy Chaban, Dmitry V. Bugreev, J. Hodgkinson, Alexander V. Mazin, Elena V. Orlova
Software Mentions: 1
Published: over 16 years ago

10.1371/journal.pone.0059307

The Differential Antiviral Activities of Chicken Interferon α (ChIFN-α) and ChIFN-β are Related to Distinct Interferon-Stimulated Gene Expression
Cited by: 48
Author(s): Hongren Qu, Limin Yang, Shanshan Meng, Lei Xu, Yuhai Bi, Xiaojuan Jia, Jing Li, Lei Sun, Li Chen
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0101846

Structural and Biochemical Characterization of Human PR70 in Isolation and in Complex with the Scaffolding Subunit of Protein Phosphatase 2A
Cited by: 15
Author(s): Rebecca Dovega, Susan E. Tsutakawa, E.M. Quistgaard, Madhanagopal Anandapadamanaban, Christian Löw, P. Nordlund
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pone.0228159

Proteolysis activation of Cry1Ac and Cry2Ab protoxins by larval midgut juice proteases from Helicoverpa armigera
Cited by: 9
Author(s): Shaoyan Liu, Shuo Wang, Shuwen Wu, Yingliang Wu, Yihua Yang
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0139095

Insight into the Mechanism of Intramolecular Inhibition of the Catalytic Activity of Sirtuin 2 (SIRT2)
Cited by: 11
Author(s): Jinyu Li, Franziska Flick, Patricia Verheugd, Paolo Carloni, Bernhard Lüscher, Giulia Rossetti
Software Mentions: 1
Published: almost 11 years ago

10.1371/journal.pone.0025188

Schizosaccharomyces pombe Ofd2 Is a Nuclear 2-Oxoglutarate and Iron Dependent Dioxygenase Interacting with Histones
Cited by: 14
Author(s): Hanne Korvald, Anne Margrethe Mølstad Moe, F. Henning Cederkvist, Bernd Thiede, Jon K. Laerdahl, Magnar Bjørås, Ingrun Alseth
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pone.0128919

Interaction between the Natural Components in Danhong Injection (DHI) with Serum Albumin (SA) and the Influence of the Coexisting Multi-Components on the SaB-BSA Binding System: Fluorescence and Molecular Docking Studies
Cited by: 8
Author(s): Jia Hao, Yingyue Zhang, Xingrui Wang, Yan Huo, Erwei Liu, Xiumei Gao
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pone.0167718

Structural Mapping and Functional Characterization of Zebrafish Class B G-Protein Coupled Receptor (GPCR) with Dual Ligand Selectivity towards GLP-1 and Glucagon
Cited by: 9
Author(s): Deena A. Oren, Wei Yang, Luce Skrabanek, Billy K. C. Chow, Thomas P. Mommsen, Svetlana Mojsov
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0114257

Using a PyMOL Activity to Reinforce the Connection between Genotype and Phenotype in an Undergraduate Genetics Laboratory
Cited by: 8
Author(s): Alexandra D. Simmons, Trang Nguyen, Jack L. Follis, Albert Ribes-Zamora
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0074040

Unique Structure and Dynamics of the EphA5 Ligand Binding Domain Mediate Its Binding Specificity as Revealed by X-ray Crystallography, NMR and MD Simulations
Cited by: 13
Author(s): Xuelu Huan, Jiahai Shi, Liangzhong Lim, Sayantan Mitra, Wanlong Zhu, Haina Qin, Elena B. Pasquale, Jianxing Song
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0062416

Identification of Residues of SARS-CoV nsp1 That Differentially Affect Inhibition of Gene Expression and Antiviral Signaling
Cited by: 75
Author(s): Andrew R. Jauregui, Dhruti Savalia, Virginia K. Lowry, Cara M. Farrell, Marc Wathelet
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0102779

Molecular Docking Simulations Provide Insights in the Substrate Binding Sites and Possible Substrates of the ABCC6 Transporter
Cited by: 23
Author(s): Mohammad Jakir Hosen, Abdullah Zubaer, Simrika Thapa, Bijendra Khadka, Anne De Paepe, Olivier Vanakker
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pone.0216320

Identification of the retinoschisin-binding site on the retinal Na/K-ATPase
Cited by: 14
Author(s): Karolina Plößl, Kristina Straub, Verena Schmid, Franziska Strunz, Jens Wild, Rainer Merkl, Bernhard H. F. Weber, Ulrike Friedrich
Software Mentions: 1
Published: about 7 years ago

10.1371/journal.pone.0056548

Interplay of Protein and DNA Structure Revealed in Simulations of the lac Operon
Cited by: 29
Author(s): Luke Czapla, Michael A. Grosner, David Swigon, Wilma K. Olson
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0050143

Biophysical Characterization of the Dimer and Tetramer Interface Interactions of the Human Cytosolic Malic Enzyme
Cited by: 11
Author(s): Sujithkumar Murugan, Hui‐Chih Hung
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0158301

ICP35 Is a TREX-Like Protein Identified in White Spot Syndrome Virus
Cited by: 1
Author(s): Panapat Phairoh, Thana Suthibatpong, Triwit Rattanarojpong, Nujarin Jongruja, Saengchan Senapin, Kiattawee Choowongkomon, Pongsak Khunrae
Software Mentions: 1
Published: about 10 years ago

10.1371/journal.pone.0079725

Improved Activity of a Thermophilic Cellulase, Cel5A, from Thermotoga maritima on Ionic Liquid Pretreated Switchgrass
Cited by: 19
Author(s): Zhiwei Chen, J.H. Pereira, Hanbin Liu, Huu M. Tran, Nathan S. Y. Hsu, Dean C. Dibble, Seema Singh, Paul D. Adams, Rajat Sapra, Masood Z. Hadi, Blake A. Simmons, Kenneth L. Sale
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0143919

Comparison of the Structure and Activity of Glycosylated and Aglycosylated Human Carboxylesterase 1
Cited by: 10
Author(s): Victoria Arena De Souza, David J. Scott, Joanne E. Nettleship, Nahid Rahman, M. Charlton, M.A. Walsh, Raymond J. Owens
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0125861

Acanthocytosis and the c.680 A>G Mutation in the PANK2 Gene: A Study Enrolling a Cohort of PKAN Patients from the Dominican Republic
Cited by: 16
Author(s): Jasmin Schiessl-Weyer, Pedro Roa, Franco Laccone, Britta Kluge, Alexander Tichy, Euripedes de Almeida Ribeiro, Rainer Prohaska, P. Stoeter, Claudia Siegl, Ulrich Salzer
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pone.0176878

Alternative oxidase (AOX) constitutes a small family of proteins in Citrus clementina and Citrus sinensis L. Osb
Cited by: 11
Author(s): Jacqueline Araújo Castro, Monique Drielle Gomes Ferreira, Raner José Santana Silva, Bruno Silva Andrade, Fabienne Micheli
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0122352

Structural Modeling of a Novel CAPN5 Mutation that Causes Uveitis and Neovascular Retinal Detachment
Cited by: 34
Author(s): Alexander G. Bassuk, Steven Yeh, Shu Wu, Daniel Martín, Stephen H. Tsang, Lokesh Gakhar, Vinit B. Mahajan
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0004928

Molecular Basis of Filamin A-FilGAP Interaction and Its Impairment in Congenital Disorders Associated with Filamin A Mutations
Cited by: 67
Author(s): Fumihiko Nakamura, Outi Heikkinen, Olli T. Pentikäinen, Teresia Osborn, Karen E. Kasza, David A. Weitz, Olga Kupiainen, Perttu Permi, Ilkka Kilpeläinen, Jari Ylänne, John H. Hartwig, Thomas P. Stossel
Software Mentions: 1
Published: over 17 years ago

10.1371/journal.pone.0187831

Link-N: The missing link towards intervertebral disc repair is species-specific
Cited by: 15
Author(s): Frances C. Bach, Lisanne T. Laagland, Michael Grant, Laura B. Creemers, Keita Ito, Björn P. Meij, Fackson Mwale, Marianna A. Tryfonidou
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0101663

Exploring the RING-Catalyzed Ubiquitin Transfer Mechanism by MD and QM/MM Calculations
Cited by: 11
Author(s): Yunmei Zhen, Guangrong Qin, Cheng Luo, Hualiang Jiang, Kunqian Yu, Guanghui Chen
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pone.0120682

Structural and Functional Studies of Phosphoenolpyruvate Carboxykinase from Mycobacterium tuberculosis
Cited by: 7
Author(s): Iva Machová, Jan Snášel, Jiřı́ Dostál, J. Brynda, Jindřich Fanfrlík, Mahavir Singh, Ján Tarábek, Ondřej Vaněk, Lucie Bednářová, Iva Pichová
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0100130

Dengue Type Four Viruses with E-Glu345Lys Adaptive Mutation from MRC-5 Cells Induce Low Viremia but Elicit Potent Neutralizing Antibodies in Rhesus Monkeys
Cited by: 4
Author(s): Hsiao‐Han Lin, Hsiang-Chi Lee, Xiaofeng Li, Meng‐Ju Tsai, Hung-Ju Hsiao, Jia-Guan Peng, Shih‐Che Sue, Cheng‐Feng Qin, Suh-Chin Wu
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pone.0025790

The Atypical Stimulant and Nootropic Modafinil Interacts with the Dopamine Transporter in a Different Manner than Classical Cocaine-Like Inhibitors
Cited by: 107
Author(s): Kyle C. Schmitt, Maarten E. A. Reith
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pone.0219180

Anticancer compound XL765 as PI3K/mTOR dual inhibitor: A structural insight into the inhibitory mechanism using computational approaches
Cited by: 23
Author(s): Mohd Rehan
Software Mentions: 1
Published: about 7 years ago

10.1371/journal.pone.0004155

Peptides Derived from HIV-1 Integrase that Bind Rev Stimulate Viral Genome Integration
Cited by: 31
Author(s): Aviad Levin, Zvi Hayouka, Markus Helfer, Ruth Brack‐Werner, Assaf Friedler, Abraham Loyter
Software Mentions: 1
Published: over 17 years ago

10.1371/journal.pone.0188127

Crystal structure of a tripartite complex between C3dg, C-terminal domains of factor H and OspE of Borrelia burgdorferi
Cited by: 13
Author(s): R. Kolodziejczyk, Kornelia M. Mikula, Tommi Kotila, Vincent L. G. Postis, T. Sakari Jokiranta, Adrian Goldman, Taru Meri
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0180999

Spatial location of neutralizing and non-neutralizing B cell epitopes on domain 1 of ricin toxin’s binding subunit
Cited by: 16
Author(s): Yinghui Rong, Greta Van Slyke, David J. Vance, Jennifer Westfall, Dylan Ehrbar, Nicholas J. Mantis
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0108419

Fine Epitope Mapping of the Central Immunodominant Region of Nucleoprotein from Crimean-Congo Hemorrhagic Fever Virus (CCHFV)
Cited by: 18
Author(s): Dongliang Liu, Li Yang, Jing Zhao, Fei Deng, Duan Xiao-mei, Kou Chun, Ting Wu, Yijie Li, Yongxing Wang, J i, Jianhua Yang, Zhìhóng Hú, Fuchun Zhang, Yújiāng Zhāng, Song Sun
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0133556

Correction: MamA as a Model Protein for Structure-Based Insight into the Evolutionary Origins of Magnetotactic Bacteria
Cited by: 2
Author(s): N. Zeytuni, Samuel Cronin, Christopher T. Lefèvre, Pascal Arnoux, Dror Baran, Zvi Shtein, Geula Davidov, Raz Zarivach
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pone.0183085

Cysteine-rich protein 2 accelerates actin filament cluster formation
Cited by: 2
Author(s): Takanori Kihara, Yoshiaki Sugimoto, Satoko Shinohara, Shunpei Takaoka, Jun Miyake
Software Mentions: 1
Published: almost 9 years ago

10.1371/journal.pone.0031164

Insights into SCP/TAPS Proteins of Liver Flukes Based on Large-Scale Bioinformatic Analyses of Sequence Datasets
Cited by: 24
Author(s): Cinzia Cantacessi, Andreas Hofmann, Neil D. Young, Ursula Broder, Ross S. Hall, Alex Loukas, Robin B. Gasser
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0034627

Identification of Critical Amino Acids in an Immunodominant IgE Epitope of Pen c 13, a Major Allergen from Penicillium citrinum
Cited by: 17
Author(s): Jui-Chieh Chen, Li-Li Chiu, Kuang-Lun Lee, Weining Huang, Jiing-Guang Chuang, Hsin-Kai Liao, Lu-Ping Chow
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0024366

Minimal Antizyme Peptide Fully Functioning in the Binding and Inhibition of Ornithine Decarboxylase and Antizyme Inhibitor
Cited by: 14
Author(s): Ju-Yi Hsieh, Jiawei Yang, Chih‐Li Lin, Guang‐Yaw Liu, Hui‐Chih Hung
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pone.0116990

Photoactive Protochlorophyllide-Enzyme Complexes Reconstituted with PORA, PORB and PORC Proteins of A. thaliana: Fluorescence and Catalytic Properties
Cited by: 31
Author(s): Michał Gabruk, Anna Stecka, Wojciech Strzałka, Jerzy Kruk, Kazimierz Strzałka, Beata Myśliwa-Kurdziel
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0051660

Functional Roles of the Non-Catalytic Calcium-Binding Sites in the N-Terminal Domain of Human Peptidylarginine Deiminase 4
Cited by: 17
Author(s): Yiliang Liu, I-Chen Tsai, Chia-Wei Chang, Yu‐Ming Liao, Guang‐Yaw Liu, Hui‐Chih Hung
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0111802

Towards Novel Amino Acid-Base Contacts in Gene Regulatory Proteins: AraR – A Case Study
Cited by: 1
Author(s): Isabel Lopes Correia, Irina Saraiva Franco, Isabel Sá‐Nogueira
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0166191

The Diversity of Yellow-Related Proteins in Sand Flies (Diptera: Psychodidae)
Cited by: 12
Author(s): Michal Šíma, Marián Novotný, Lukáš Pravda, Petra Sumová, Iva Rohoušová, Petr Volf
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0010353

Structural Allele-Specific Patterns Adopted by Epitopes in the MHC-I Cleft and Reconstruction of MHC:peptide Complexes to Cross-Reactivity Assessment
Cited by: 23
Author(s): Dinler Amaral Antunes, Gustavo Fioravanti Vieira, Maurício Rigo, Samuel Paulo Cibulski, Marialva Sinigaglia, José Artur Bogo Chies
Software Mentions: 1
Published: about 16 years ago

10.1371/journal.pone.0024329

Intrinsic Determinants of Aβ12–24 pH-Dependent Self-Assembly Revealed by Combined Computational and Experimental Studies
Cited by: 27
Author(s): Wei Xu, Ce Zhang, Philippe Derreumaux, Astrid Gräslund, Ludmilla A. Morozova‐Roche, Yuguang Mu
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pone.0097274

ATP1A3 Mutations and Genotype-Phenotype Correlation of Alternating Hemiplegia of Childhood in Chinese Patients
Cited by: 57
Author(s): Xiaoling Yang, Hua Gao, Jie Zhang, Xiaojing Xu, Xiaoyan Liu, Xiru Wu, Liping Wei, Yuehua Zhang
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pone.0011516

Modeling-Dependent Protein Characterization of the Rice Aldehyde Dehydrogenase (ALDH) Superfamily Reveals Distinct Functional and Structural Features
Cited by: 46
Author(s): Simeon O. Kotchoni, José Carlos Jiménez-López, Dongying Gao, Vincent M. Edwards, Emma W. Gachomo, Venu M. Margam, Manfredo J. Seufferheld
Software Mentions: 1
Published: about 16 years ago

10.1371/journal.pone.0085768

Human Variants in the Neuronal Basic Helix-Loop-Helix/Per-Arnt-Sim (bHLH/PAS) Transcription Factor Complex NPAS4/ARNT2 Disrupt Function
Cited by: 21
Author(s): David C. Bersten, John B. Bruning, Daniel J. Peet, Murray L. Whitelaw
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0017396

Evolution of Acetylcholinesterase and Butyrylcholinesterase in the Vertebrates: An Atypical Butyrylcholinesterase from the Medaka Oryzias latipes
Cited by: 34
Author(s): Leo Pezzementi, Florian Nachon, Arnaud Chatonnet
Software Mentions: 1
Published: over 15 years ago

10.1371/journal.pone.0141716

Structural and Enzymatic Characterization of a Nucleoside Diphosphate Sugar Hydrolase from Bdellovibrio bacteriovorus
Cited by: 6
Author(s): Andres H. de la Peña, Allison Suarez, Krisna C. Duong‐Ly, Andrew Schoeffield, Mario A. Pizarro-Dupuy, Melissa Zarr, Silvia A. Piñeiro, L. Mario Amzel, Sandra B. Gabelli
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0146907

Chicken scFvs with an Artificial Cysteine for Site-Directed Conjugation
Cited by: 5
Author(s): Aram Yoon, Jung Won Shin, Soohyun Kim, Hyori Kim, Junho Chung
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0137279

To Hit or Not to Hit, That Is the Question – Genome-wide Structure-Based Druggability Predictions for Pseudomonas aeruginosa Proteins
Cited by: 9
Author(s): Aurijit Sarkar, Ruth Brenk
Software Mentions: 1
Published: almost 11 years ago

10.1371/journal.pone.0075055

Engineering Yeast Hexokinase 2 for Improved Tolerance Toward Xylose-Induced Inactivation
Cited by: 23
Author(s): Basti Bergdahl, Anders Sandström, Celina Borgström, Tarinee Boonyawan, Ed W. J. van Niel, Marie-Françoise Gorwa-Grauslund
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0026760

Differential Sensitivity of ERBB2 Kinase Domain Mutations towards Lapatinib
Cited by: 103
Author(s): Rama Krishna Kancha, Nikolas von Bubnoff, Natalie Bartosch, Christian Peschel, Richard A. Engh, Justus Duyster
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0045930

NMR and Mutational Identification of the Collagen-Binding Site of the Chaperone Hsp47
Cited by: 12
Author(s): Maho Yagi-Utsumi, Y. Sumi, Yoshiki Yamaguchi, Yoshimi Nishi, Eiji Kurimoto, Yoshihito Ishida, Takayuki Homma, Jun Hoseki, Yohei Nishikawa, Takao Koide, Kazuhiro Nagata, Koichi Kato
Software Mentions: 1
Published: almost 14 years ago

10.1371/journal.pone.0201298

Mechanism by which water and protein electrostatic interactions control proton transfer at the active site of channelrhodopsin
Cited by: 18
Author(s): Suliman Adam, Ana‐Nicoleta Bondar
Software Mentions: 1
Published: almost 8 years ago

10.1371/journal.pone.0176078

Observation of σ-pore currents in mutant hKv1.2_V370C potassium channels
Cited by: 2
Author(s): Pavel Tyutyaev, Stephan Grissmer
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0197029

Fn3 proteins engineered to recognize tumor biomarker mesothelin internalize upon binding
Cited by: 7
Author(s): Allison R. Sirois, Daniela A. Deny, Samantha Rose Baierl, Katia S. George, Sarah Moore
Software Mentions: 1
Published: about 8 years ago

10.1371/journal.pone.0032702

Direct Interaction of the N-Terminal Domain of Ribosomal Protein S1 with Protein S2 in Escherichia coli
Cited by: 26
Author(s): Konstantin Byrgazov, Salim Manoharadas, Anna Chao Kaberdina, Oliver Vesper, Isabella Moll
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0244176

Designing of a next generation multiepitope based vaccine (MEV) against SARS-COV-2: Immunoinformatics and in silico approaches
Cited by: 75
Author(s): Muhammad Tahir ul Qamar, Abdur Rehman, Kishver Tusleem, Usman Ali Ashfaq, Muhammad Qasim, Xitong Zhu, Israr Fatima, Farah Shahid, Ling Ling Chen
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0059206

Molecular Modeling of Disease Causing Mutations in Domain C1 of cMyBP-C
Cited by: 19
Author(s): Poornima Gajendrarao, Navaneethakrishnan Krishnamoorthy, Heba Sh. Kassem, Sarah Moharem-Elgamal, Fabiola Cecchi, Iacopo Olivotto, Magdi H. Yacoub
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0207205

The phosphorylation of sorting nexin 5 at serine 226 regulates retrograde transport and macropinocytosis
Cited by: 13
Author(s): Nao Itai, Tsukasa Shimazu, Takayuki Kimura, Issei Ibe, Ryo Yamashita, Yasushi Kaburagi, Taeko Dohi, Takashi Tonozuka, Toshifumi Takao, Atsushi Nishikawa
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0176694

Small molecule inhibitors of mesotrypsin from a structure-based docking screen
Cited by: 16
Author(s): Olumide Kayode, Zunnan Huang, Alexei S. Soares, Thomas R. Caulfield, Zigang Dong, Ann M. Bode, Evette S. Radisky
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0039093

Dissecting and Circumventing the Requirement for RAM in CSL-Dependent Notch Signaling
Cited by: 6
Author(s): Scott E. Johnson, Doug Barrick
Software Mentions: 1
Published: almost 14 years ago

10.1371/journal.pone.0047865

Solution Structure of a Phytocystatin from Ananas comosus and Its Molecular Interaction with Papain
Cited by: 17
Author(s): Deli Irene, Tse-Yu Chung, Bo-Jiun Chen, Ting-Hang Liu, Fengyin Li, Jason T. C. Tzen, Cheng‐I Wang, Chia-Lin Chyan
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0138221

A Novel AXIN2 Missense Mutation Is Associated with Non-Syndromic Oligodontia
Cited by: 18
Author(s): Haochen Liu, Tingting Ding, Yuan Zhan, Hailan Feng
Software Mentions: 1
Published: almost 11 years ago

10.1371/journal.pone.0034734

Insight on an Arginine Synthesis Metabolon from the Tetrameric Structure of Yeast Acetylglutamate Kinase
Cited by: 18
Author(s): Sergio de Cima, F. Gil-Ortiz, Marjolaine Crabeel, Ignacio Fita, Vicente Rubio
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0234152

S100A1 blocks the interaction between p53 and mdm2 and decreases cell proliferation activity
Cited by: 7
Author(s): Deepu Dowarha, Ruey Hwang Chou, Chin Yu
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pone.0239364

Alkaloids of Abuta panurensis Eichler: In silico and in vitro study of acetylcholinesterase inhibition, cytotoxic and immunomodulatory activities
Cited by: 6
Author(s): Rochelly da Silva Mesquita, Andrii Kyrylchuk, Regiane Costa de Oliveira, Ingrity S.C. Sá, Gabriel Coutinho Borges Camargo, Gemilson Soares Pontes, Felipe M. A. da Silva, Rita de Cássia Saraiva Nunomura, Andriy Grafov
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pone.0076687

Directed Evolution of Aminoglycoside Phosphotransferase (3′) Type IIIa Variants That Inactivate Amikacin but Impose Significant Fitness Costs
Cited by: 9
Author(s): Joseph R. Kramer, Ichiro Matsumura
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0000548

Structure and Evolutionary Origin of Ca2+-Dependent Herring Type II Antifreeze Protein
Cited by: 72
Author(s): Yang Liu, Zhengjun Li, Qingsong Lin, Jan Kosiński, J. Seetharaman, Janusz M. Bujnicki, J. Sivaraman, Choy‐Leong Hew
Software Mentions: 1
Published: about 19 years ago

10.1371/journal.pone.0212687

Detection of ON1 and novel genotypes of human respiratory syncytial virus and emergence of palivizumab resistance in Lebanon
Cited by: 23
Author(s): Hadi Abou-El-Hassan, Elie Massaad, Nadia Soudani, Aia Assaf‐Casals, Rouba Shaker, Mireille Lteif Khoury, Soha Ghanem, Maria Karam, Rabih R. Andary, Reiko Saito, Ghassan Dbaibo, Hassan Zaraket
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0146612

Comparative MD Simulations Indicate a Dual Role for Arg1323.50 in Dopamine-Dependent D2R Activation
Cited by: 8
Author(s): Ralf C. Kling, Timothy Clark, Peter Gmeiner
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0203369

Insights on a putative aminoacyl-tRNA-protein transferase of Leishmania major
Cited by: 0
Author(s): Rohit Sharma, Monica Terrao, Felipe Freitas-Castro, Reinhard Breitling, Vítor Marcel Faça, Eduardo B. Oliveira, Ângela K. Cruz
Software Mentions: 1
Published: almost 8 years ago

10.1371/journal.pone.0154198

SRPK1 and Akt Protein Kinases Phosphorylate the RS Domain of Lamin B Receptor with Distinct Specificity: A Combined Biochemical and In Silico Approach
Cited by: 15
Author(s): Nikolaos Voukkalis, Maria Koutroumani, Christoforos Zarkadas, Eleni Nikolakaki, Metaxia Vlassi, Thomas Giannakouŕos
Software Mentions: 1
Published: about 10 years ago

10.1371/journal.pone.0190545

S100B as an antagonist to block the interaction between S100A1 and the RAGE V domain
Cited by: 16
Author(s): Md. Imran Khan, Yu-Kai Su, Jinhao Zou, Lee‐Wei Yang, Ruey Hwang Chou, Chin Yu
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0085349

Identification of a New Epitope in uPAR as a Target for the Cancer Therapeutic Monoclonal Antibody ATN-658, a Structural Homolog of the uPAR Binding Integrin CD11b (αM)
Cited by: 30
Author(s): Xiang Xu, Cai Yuan, Ying Wei, Fernando Doñate, Jose Juarez, Graham Parry, Liqing Chen, Edward J. Meehan, Richard W. Ahn, Andrey Ugolkov, Oleksii Dubrovskyi, Thomas V. O’Halloran, Mingdong Huang, Andrew P. Mazar
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0018142

A Computational Model of the LGI1 Protein Suggests a Common Binding Site for ADAM Proteins
Cited by: 33
Author(s): Emanuela Leonardi, Simonetta Andreazza, Stefano Vanin, Giorgia Busolin, Carlo Nobile, Silvio C. E. Tosatto
Software Mentions: 1
Published: over 15 years ago

10.1371/journal.pone.0044282

Insights into Phosphate Cooperativity and Influence of Substrate Modifications on Binding and Catalysis of Hexameric Purine Nucleoside Phosphorylases
Cited by: 10
Author(s): P.O. Giuseppe, N.H. Martins, A.N. Meza, C.R. Santos, H.M. Pereira, Mário Tyago Murakami
Software Mentions: 1
Published: almost 14 years ago

10.1371/journal.pone.0007072

Prodepth: Predict Residue Depth by Support Vector Regression Approach from Protein Sequences Only
Cited by: 39
Author(s): Jiangning Song, Hao Tan, Khalid Mahmood, Ruby H. P. Law, Ashley M. Buckle, Geoffrey I. Webb, Tatsuya Akutsu, James C. Whisstock
Software Mentions: 1
Published: almost 17 years ago

10.1371/journal.pone.0081068

Inhibition of Nutlin-Resistant HDM2 Mutants by Stapled Peptides
Cited by: 26
Author(s): Siau Jia Wei, Thomas L. Joseph, Sharon Chee, Ling Li, Larisa Yurlova, Kourosh Zolghadr, Christopher J. Brown, David P. Lane, Chandra Verma, Farid J. Ghadessy
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0085763

Disruption of TgPHIL1 Alters Specific Parameters of Toxoplasma gondii Motility Measured in a Quantitative, Three-Dimensional Live Motility Assay
Cited by: 64
Author(s): Jacqueline M. Leung, Mark A. Rould, Christoph Konradt, Christopher A. Hunter, Gary E. Ward
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0021532

Evolutionary Analysis of Novel Serine Proteases in the Venom Gland Transcriptome of Bitis gabonica rhinoceros
Cited by: 30
Author(s): Sakthivel Vaiyapuri, Simon C. Wagstaff, Robert A. Harrison, Jonathan M. Gibbins, E. Gail Hutchinson
Software Mentions: 1
Published: about 15 years ago

10.1371/journal.pone.0196797

A flavin-dependent halogenase from metagenomic analysis prefers bromination over chlorination
Cited by: 55
Author(s): Pia R. Neubauer, Christiane Widmann, Daniel Wibberg, Lea Schröder, Marcel Frese, Tilman Kottke, Jörn Kalinowski, Hartmut H. Niemann, Norbert Sewald
Software Mentions: 1
Published: about 8 years ago

10.1371/journal.pone.0048750

Immunization with a Hemagglutinin-Derived Synthetic Peptide Formulated with a CpG-DNA-Liposome Complex Induced Protection against Lethal Influenza Virus Infection in Mice
Cited by: 28
Author(s): Jae Won Rhee, Dongbum Kim, Byung Kwon Park, Sang-Hoon Kwon, Sunhee Cho, Ilseob Lee, Man Seong Park, Jae Nam Seo, Yong Sun Kim, Hong Seok Choi, Younghee Lee
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0109705

Computational Insights into the Inhibitory Mechanism of Human AKT1 by an Orally Active Inhibitor, MK-2206
Cited by: 41
Author(s): Mohd Rehan, M.A. Beg, Shadma Parveen, Ghazi A. Damanhouri, Galila Zaher
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pone.0060072

Structural Analysis of a Novel Cyclohexylamine Oxidase from Brevibacterium oxydans IH-35A
Cited by: 22
Author(s): I.A. Mirza, David L. Burk, Bing Xiong, Hiroaki Iwaki, Yoshie Hasegawa, Stephan Große, Peter C. K. Lau, Albert M. Berghuis
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0090445

Fine-Mapping of Immunodominant Linear B-Cell Epitopes of the Staphylococcus Aureus SEB Antigen Using Short Overlapping Peptides
Cited by: 8
Author(s): Zhuo Zhao, Bin Li, Hongling Sun, Jinyong Zhang, Yilin Wang, Li Chen, Jian Hu, Yang He, Hao Zeng, Quanming Zou, Chao Wu
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0088809

Model of a DNA-Protein Complex of the Architectural Monomeric Protein MC1 from Euryarchaea
Cited by: 7
Author(s): Françoise Paquet, Olivier Delalande, S. Goffinont, Françoise Culard, Karine Loth, Ulysse Asseline, B. Castaing, C. Landon
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0063452

Substrate Specificity Provides Insights into the Sugar Donor Recognition Mechanism of O-GlcNAc Transferase (OGT)
Cited by: 28
Author(s): Xiaofeng Ma, Li Pi, Hui Yan, Hong Sun, Xiaoyan Liu, Feng Zheng, Lei Li, Yi Chen, Musleh M. Muthana, Xi Chen, Peng George Wang, Lianwen Zhang
Software Mentions: 1
Published: about 13 years ago