10.3390/ijms21072600

Structural Characterization of an ACP from Thermotoga maritima: Insights into Hyperthermal Adaptation
Cited by: 8
Author(s): Yeongjoon Lee, Ahjin Jang, Min‐Cheol Jeong, Nuri Park, Jungwoo Park, Woo Cheol Lee, Chaejoon Cheong, Yangmee Kim
Software Mentions: 2
Published: over 5 years ago

10.3390/molecules24173044

Sub-Atomic Resolution Crystal Structures Reveal Conserved Geometric Outliers at Functional Sites
Cited by: 5
Author(s): Saara Laulumaa, Petri Kursula
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.pone.0026792

Novel Adiponectin Variants Identified in Type 2 Diabetic Patients Reveal Multimerization and Secretion Defects
Cited by: 13
Author(s): Prapaporn Jungtrakoon, Nattachet Plengvidhya, Watip Tangjittipokin, Sarin Chimnaronk, Wanisa Salaemae, Nalinee Chongjaroen, Kanjana Chanprasert, Jatuporn Sujjitjoon, Chatchawan Srisawat, Pa‐thai Yenchitsomanus
Software Mentions: 2
Published: about 14 years ago

10.3390/ijms21082713

Dynamics, a Powerful Component of Current and Future in Silico Approaches for Protein Design and Engineering
Cited by: 12
Author(s): Bartłomiej Surpeta, Carlos Sequeiros-Borja, Jan Brezovský
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pbio.3000277

Structural insights into histone chaperone Chz1-mediated H2A.Z recognition and histone replacement
Cited by: 17
Author(s): Yunyun Wang, Sheng Liu, Lu Sun, Ning Xu, Shan Shan, Fei Wu, Xiaoping Liang, Yingzi Huang, Ed Luk, Carl Wu, Zheng Zhou
Software Mentions: 2
Published: over 6 years ago

10.3390/ijms21082857

A Computational Probe into the Structure and Dynamics of the Full-Length Toll-Like Receptor 3 in a Phospholipid Bilayer
Cited by: 8
Author(s): Mahesh Chandra Patra, Maria Batool, Muhammad Haseeb, Sangdun Choi
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0079480

Cube - An Online Tool for Comparison and Contrasting of Protein Sequences
Cited by: 1
Author(s): Zong Hong Zhang, Aik Aun Khoo, Ivana Mihalek
Software Mentions: 2
Published: almost 12 years ago

10.3390/molecules22010003

Synthesis, Biological Evaluation, and Docking Studies of a Novel Sulfonamido-Based Gallate as Pro-Chondrogenic Agent for the Treatment of Cartilage
Cited by: 8
Author(s): Xiao Lin, Limin Chai, Buming Liu, Hailan Chen, Li Zheng, Qin Liu, Cui-Wu Lin
Software Mentions: 2
Published: almost 9 years ago

10.3390/ijms21093152

STIP1/HOP Regulates the Actin Cytoskeleton through Interactions with Actin and Changes in Actin-Binding Proteins Cofilin and Profilin
Cited by: 6
Author(s): Samantha Joy Beckley, Morgan Campbell Hunter, Sarah N. Kituyi, Ianthe Wingate, Abantika Chakraborty, Kelly Schwarz, Matodzi Makhubu, Robert Pierre Rousseau, Duncan Kyle Ruck, Jo‐Anne de la Mare, Gregory L. Blatch, Adrienne L. Edkins
Software Mentions: 2
Published: over 5 years ago

10.1093/protein/gzx044

Novel CH1:CL interfaces that enhance correct light chain pairing in heterodimeric bispecific antibodies
Cited by: 26
Author(s): Maximilian Bönisch, Carolin Sellmann, Daniel Maresch, Claudia Halbig, Stefan Becker, Lars Toleikis, Björn Hock, Florian Rüker
Software Mentions: 2
Published: about 8 years ago

10.3390/ijms21103579

Resveratrol Delivery from Implanted Cyclodextrin Polymers Provides Sustained Antioxidant Effect on Implanted Neural Probes
Cited by: 15
Author(s): Rebecca M Haley, Sean T. Zuckerman, Hassan Dakhlallah, Jeffery R Capadona, Horst A. von Recum, Evon S. Ereifej
Software Mentions: 2
Published: over 5 years ago

10.3390/molecules19067008

Combination of 2D/3D Ligand-Based Similarity Search in Rapid Virtual Screening from Multimillion Compound Repositories. Selection and Biological Evaluation of Potential PDE4 and PDE5 Inhibitors
Cited by: 18
Author(s): Krisztina Dobi, István Hajdú, Beáta Flachner, Gabriella Fabó, Mária Szaszkó, Melinda Bognár, Csaba Magyar, István Simon, Dániel Szisz, Zsolt Lőrincz, Sándor Cseh, György Dormán
Software Mentions: 2
Published: over 11 years ago

10.3390/cancers13153847

Identification of Cancer Hub Gene Signatures Associated with Immune-Suppressive Tumor Microenvironment and Ovatodiolide as a Potential Cancer Immunotherapeutic Agent
Cited by: 23
Author(s): Jiahong Chen, Alexander T.H. Wu, Bashir Lawal, David T.W. Tzeng, Jih‐Chin Lee, Ching–Liang Ho, Tsu‐Yi Chao
Software Mentions: 2
Published: over 4 years ago

10.3389/fonc.2021.606820

Interpreting Sequence Variation in PDAC-Predisposing Genes Using a Multi-Tier Annotation Approach Performed at the Gene, Patient, and Cohort Level
Cited by: 3
Author(s): Michael T. Zimmermann, Angela Mathison, Tim Stodola, Douglas B. Evans, Jenica Abrudan, Wendy Demos, Michael Tschannen, Mohammed Aldakkak, Jennifer L. Geurts, Gwen Lomberk, Susan Tsai, Raúl Urrutia
Software Mentions: 2
Published: over 4 years ago

10.1002/pro.2456

The crystal structure of NS5A domain 1 from genotype 1a reveals new clues to the mechanism of action for dimeric HCV inhibitors
Cited by: 91
Author(s): Sebastian Lambert, David R. Langley, James A. Garnett, Richard Angell, Katy Hedgethorne, Nicholas A. Meanwell, Stephen Matthews
Software Mentions: 2
Published: over 11 years ago

10.1371/journal.pone.0042612

FASCAPLYSIN as a Specific Inhibitor for CDK4: Insights from Molecular Modelling
Cited by: 41
Author(s): Muhammad Shafiq, Thomas Steinbrecher, Ralf Schmid
Software Mentions: 2
Published: over 13 years ago

10.3390/ph14030214

Evaluation of the Interactions between Human Serum Albumin (HSA) and Non-Steroidal Anti-Inflammatory (NSAIDs) Drugs by Multiwavelength Molecular Fluorescence, Structural and Computational Analysis
Cited by: 16
Author(s): Susana Amézqueta, José Luís Beltrán, Anna Maria Bolioli, Lluís Campos-Vicens, F. Javier Luque, Clara Ràfols
Software Mentions: 2
Published: over 4 years ago

10.1038/s41598-019-48612-4

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

10.1186/1472-6807-12-32

Ternary complex structures of human farnesyl pyrophosphate synthase bound with a novel inhibitor and secondary ligands provide insights into the molecular details of the enzyme’s active site closure
Cited by: 22
Author(s): Jaeok Park, Yih‐Shyan Lin, Joris W. De Schutter, Youla S. Tsantrizos, Albert M. Berghuis
Software Mentions: 2
Published: almost 13 years ago

10.3390/cancers13040909

Role of PFKFB3 and PFKFB4 in Cancer: Genetic Basis, Impact on Disease Development/Progression, and Potential as Therapeutic Targets
Cited by: 53
Author(s): Krzysztof Kotowski, Jakub Rosik, Filip Machaj, Stanisław Supplitt, Daniel Wiczew, Karolina Jabłońska, Emilia Wiecheć, Saeid Ghavami, Piotr Dzięgiel
Software Mentions: 2
Published: over 4 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

10.1093/braincomms/fcab063

Dominant <i>ACO2</i> mutations are a frequent cause of isolated optic atrophy
Cited by: 12
Author(s): Majida Charif, Naïg Guéguen, Marc Ferré, Zouhair Elkarhat, Salim Khiati, Morgane LeMao, Arnaud Chevrollier, Valérie Desquiret-Dumas, David Goudenège, Céline Bris, Selma Kane, Jennifer Alban, Stéphanie Chupin, Céline Wetterwald, Leonardo Caporali, Fabrizio Tagliavini, Chiara LaMorgia, Michele Carbonelli, Neringa Jurkutė, Abdelhamid Barakat, Philippe Gohier, Christophe Verny, Magalie Barth, Vincent Procaccio, Dominique Bonneau, Xavier Zanlonghi, Isabelle Meunier, Nicole Weisschuh, Simone Schimpf-Linzenbold, Felix Tonagel, Ulrich Kellner, Patrick Yu‐Wai‐Man, Valerio Carelli, Bernd Wissinger, Patrizia Amati‐Bonneau, Pascal Reynier, Guy Lenaers
Software Mentions: 2
Published: over 4 years ago

10.3390/ph14070669

New (Iso)quinolinyl-pyridine-2,6-dicarboxamide G-Quadruplex Stabilizers. A Structure-Activity Relationship Study
Cited by: 7
Author(s): Enrico Cadoni, Pedro R. Magalhães, Rita M. Emídio, Eduarda Mendes, Jorge M. B. Vítor, Josué Carvalho, Carla Cruz, Bruno L. Victor, Alexandra Paulo
Software Mentions: 2
Published: over 4 years ago

10.3390/cancers13061244

3D Pharmacophore-Based Discovery of Novel KV10.1 Inhibitors with Antiproliferative Activity
Cited by: 5
Author(s): Žan Toplak, Louise Antonia Hendrickx, Špela Gubič, Štefan Možina, Bojana Žegura, Alja Štern, Matjaž Novak, Xiaoyi Shi, Steve Peigneur, Jan Tytgat, Tihomir Tomašič, Luis A. Pardo, Lucíja Peterlin Mašič
Software Mentions: 2
Published: over 4 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

10.1186/1756-0500-5-367

ACPYPE - AnteChamber PYthon Parser interfacE
Cited by: 1,683
Author(s): Alan Wilter Sousa da Silva, Wim Vranken
Software Mentions: 2
Published: over 13 years ago

10.1038/s41598-019-50671-6

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

10.1002/pro.3628

Function and solution structure of the <scp> <i>Arabidopsis thaliana</i> </scp> RALF8 peptide
Cited by: 10
Author(s): Ronnie O. Frederick, Miyoshi Haruta, Marco Tonelli, Woonghee Lee, Gabriel Cornilescu, Claudia C. Cornilescu, Michael R. Sussman, John L. Markley
Software Mentions: 2
Published: over 6 years ago

10.1186/1472-6807-11-28

A model for the Escherichia coli FtsB/FtsL/FtsQ cell division complex
Cited by: 42
Author(s): Felipe Villanelo, Alexis Órdenes, Juan E. Brunet, Rosalba Lagos, Octavio Monasterio
Software Mentions: 2
Published: over 14 years ago

10.3390/cancers13112843

Elevated Expression of the RAGE Variant-V in SCLC Mitigates the Effect of Chemotherapeutic Drugs
Cited by: 4
Author(s): Bindhu K. Madhavan, Zhe Han, B.K. Singh, Nico Bordt, Serap Kaymak, Obul Reddy Bandapalli, Lars Kihm, Khurrum Shahzad, Berend Isermann, Stephan Herzig, Peter P. Nawroth, Vaijayanti A. Kumar
Software Mentions: 2
Published: over 4 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

10.1038/s41598-019-47485-x

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

10.3390/cancers11121828

Synergy of Ginkgetin and Resveratrol in Suppressing VEGF-Induced Angiogenesis: A Therapy in Treating Colorectal Cancer
Cited by: 49
Author(s): Weihui Hu, Gallant Kar-Lun Chan, Ran Duan, Huaiyou Wang, Xiangpeng Kong, Tina Tingxia Dong, Karl Wah-Keung Tsim
Software Mentions: 2
Published: almost 6 years ago

10.3390/molecules26040837

Exploring the Distinct Binding and Activation Mechanisms for Different CagA Oncoproteins and SHP2 by Molecular Dynamics Simulations
Cited by: 3
Author(s): Quan Wang, Wencheng Zhao, Xueqi Fu, Qing‐Chuan Zheng
Software Mentions: 2
Published: almost 5 years ago

10.1038/s41598-019-51530-0

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

10.1186/s13068-019-1457-0

The GMC superfamily of oxidoreductases revisited: analysis and evolution of fungal GMC oxidoreductases
Cited by: 77
Author(s): Leander Sützl, Gabriel Foley, Elizabeth M. J. Gillam, Mikael Bodén, Dietmar Haltrich
Software Mentions: 2
Published: over 6 years ago

10.3390/ijms21113765

New Tetrahydroacridine Hybrids with Dichlorobenzoic Acid Moiety Demonstrating Multifunctional Potential for the Treatment of Alzheimer’s Disease
Cited by: 4
Author(s): Kamila Czarnecka, Małgorzata Girek, Przemysław Wójtowicz, Paweł Kręcisz, Robert Skibiński, Jakub Jończyk, Kamil Łątka, Marek Bajda, Anna Walczak, Grzegorz Galita, Jacek Kabziński, Ireneusz Majsterek, Piotr Szymczyk, Paweł Szymański
Software Mentions: 2
Published: over 5 years ago

10.3390/molecules25010010

Design, Synthesis, and Biological Evaluation of Pyridineamide Derivatives Containing a 1,2,3-Triazole Fragment as Type II c-Met Inhibitors
Cited by: 7
Author(s): Hehua Xiong, Jianxin Cheng, Jianqing Zhang, Qian Zhang, Zhen Xiao, Han Zhang, Qidong Tang, Pengwu Zheng
Software Mentions: 2
Published: almost 6 years ago

10.1186/1472-6807-7-24

A previously unobserved conformation for the human Pex5p receptor suggests roles for intrinsic flexibility and rigid domain motions in ligand binding
Cited by: 24
Author(s): Will A. Stanley, Niko V. Pursiainen, Elspeth F. Garman, André H. Juffer, Matthias Wilmanns, Petri Kursula
Software Mentions: 2
Published: over 18 years ago

10.3390/cancers12061412

A H-REV107 Peptide Inhibits Tumor Growth and Interacts Directly with Oncogenic KRAS Mutants
Cited by: 10
Author(s): Chang Woo Han, Mi Suk Jeong, Soonhoi Ha, Se Bok Jang
Software Mentions: 2
Published: over 5 years ago

10.3390/ijms21113803

Identification of Selective Novel Hits against Plasmodium falciparum Prolyl tRNA Synthetase Active Site and a Predicted Allosteric Site Using In Silico Approaches
Cited by: 8
Author(s): Dorothy Wavinya Nyamai, Özlem Tastan Bishop
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pcbi.1003995

Pyranose Dehydrogenase Ligand Promiscuity: A Generalized Approach to Simulate Monosaccharide Solvation, Binding, and Product Formation
Cited by: 8
Author(s): Michael Graf, Zhihua Lin, Urban Bren, Dietmar Haltrich, W. F. van Gunsteren, Chris Oostenbrink
Software Mentions: 2
Published: almost 11 years ago

10.1038/s41598-019-46770-z

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

10.1038/s41598-019-52121-9

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

10.1371/journal.pone.0026981

Structural Basis for Broad Neutralization of Hepatitis C Virus Quasispecies
Cited by: 12
Author(s): Pascal Lapierre, Myriam Troesch, Fernando Álvarez, Hugo Soudeyns
Software Mentions: 2
Published: about 14 years ago

10.1038/s41598-019-52626-3

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

10.1002/pro.3779

ConSurf‐DB: An accessible repository for the evolutionary conservation patterns of the majority of PDB proteins
Cited by: 74
Author(s): Adi Ben Chorin, Gal Masrati, Amit Kessel, Aya Narunsky, Josef Sprinzak, Shlomtzion Lahav, Haim Ashkenazy, Nir Ben‐Tal
Software Mentions: 2
Published: almost 6 years ago

10.1038/s41598-019-52964-2

Structures of GapR reveal a central channel which could accommodate B-DNA
Cited by: 9
Author(s): M.J. Tarry, C. Harmel, James Taylor, Gregory T. Marczynski, T.M. Schmeing
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.pone.0071866

The Tick-Derived Anticoagulant Madanin Is Processed by Thrombin and Factor Xa
Cited by: 19
Author(s): Ana C. Figueiredo, Daniele de Sanctis, Pedro José Barbosa Pereira
Software Mentions: 2
Published: over 12 years ago

10.1038/s41598-019-53755-5

Structural basis for phospholipase A2-like toxin inhibition by the synthetic compound Varespladib (LY315920)
Cited by: 44
Author(s): Daniela P. Marchi-Salvador, Antoniel Augusto Severo Gomes, Wendy Bryan-Quirós, Julián Fernández, Matthew R. Lewin, José Marı́a Gutiérrez, Bruno Lomonte, Marcos R.M. Fontes
Software Mentions: 2
Published: almost 6 years ago

10.1038/s41598-019-51482-5

Molecular Characterization of Auxin Efflux Carrier- ABCB1 in hexaploid wheat
Cited by: 3
Author(s): Amita Mohan, Amandeep Kaur Dhaliwal, R. Nagarajan, Kulvinder S. Gill
Software Mentions: 2
Published: almost 6 years ago

10.3390/cancers6031464

Phosphorylation of Large T Antigen Regulates Merkel Cell Polyomavirus Replication
Cited by: 19
Author(s): José Ángel Menéndez Díaz, Xin Wang, Sabrina H. Tsang, Jing Jiao, Jianxin You
Software Mentions: 2
Published: over 11 years ago

10.1038/s41598-019-53868-x

Novel miR-29b target regulation patterns are revealed in two different cell lines
Cited by: 9
Author(s): Wenting Zhao, Lesley Cheng, Camelia Quek, Shayne A. Bellingham, Andrew F. Hill
Software Mentions: 2
Published: almost 6 years ago

10.3390/ph12020058

Insights into the Molecular Mechanisms of Eg5 Inhibition by (+)-Morelloflavone
Cited by: 11
Author(s): Tomisin Happy Ogunwa, Emiliano Laudadio, Roberta Galeazzi, Takayuki Miyanishi
Software Mentions: 2
Published: over 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

10.1002/pro.3732

Pharmmaker: Pharmacophore modeling and hit identification based on druggability simulations
Cited by: 17
Author(s): Ji Young Lee, James Krieger, Hongchun Li, İvet Bahar
Software Mentions: 2
Published: almost 6 years ago

10.1038/s41598-019-46230-8

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

10.3390/ijms21113769

Affibody-Binding Ligands
Cited by: 18
Author(s): Annalisa Barozzi, R. Ashton Lavoie, Kevin Day, Raphael Prodromou, Stefano Menegatti
Software Mentions: 2
Published: over 5 years ago

10.1186/s12918-017-0427-z

A scalable metabolite supplementation strategy against antibiotic resistant pathogen Chromobacterium violaceum induced by NAD+/NADH+ imbalance
Cited by: 17
Author(s): Deepanwita Banerjee, Dharmeshkumar Parmar, Nivedita Bhattacharya, Avinash D. Ghanate, Venkateswarlu Panchagnula, Anu Raghunathan
Software Mentions: 2
Published: over 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

10.1371/journal.pcbi.1000918

An Introduction to Biomolecular Graphics
Cited by: 40
Author(s): Cameron Mura, Colin M. McCrimmon, Jason Vertrees, M.R. Sawaya
Software Mentions: 2
Published: about 15 years ago

10.1371/journal.pcbi.1005897

Fluctuating Finite Element Analysis (FFEA): A continuum mechanics software tool for mesoscale simulation of biomolecules
Cited by: 24
Author(s): Albert Solernou, Benjamin S. Hanson, Robin A. Richardson, Robert C. Welch, Daniel J. Read, Oliver G. Harlen, Sarah A. Harris
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0196751

Assigning crystallographic electron densities with free energy calculations—The case of the fluoride channel Fluc
Cited by: 2
Author(s): Igor Ariz-Extreme, Jochen S. Hub
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pcbi.1000357

Amyloidogenesis Abolished by Proline Substitutions but Enhanced by Lipid Binding
Cited by: 39
Author(s): Ping Jiang, Wei Xu, Yuguang Mu
Software Mentions: 2
Published: over 16 years ago

10.1186/1472-6807-12-13

Crystal structure of the Yersinia enterocolitica type III secretion chaperone SycD in complex with a peptide of the minor translocator YopD
Cited by: 25
Author(s): Madeleine Schreiner, Hartmut H. Niemann
Software Mentions: 2
Published: almost 14 years ago

10.3390/cancers12061523

New Anti-Cancer Strategy to Suppress Colorectal Cancer Growth Through Inhibition of ATG4B and Lysosome Function
Cited by: 13
Author(s): Yuanyuan Fu, Qianqian Gu, Li Luo, Jiangang Xu, Yuping Luo, Fan Xia, Fanghai Han, Hong Liu, Xiao Ming Yin, Zhiying Huang, Min Li
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-019-55635-4

Damaging coding variants within kainate receptor channel genes are enriched in individuals with schizophrenia, autism and intellectual disabilities
Cited by: 10
Author(s): Maria Koromina, Miles Flitton, Alix Blockley, Ian R. Mellor, Helen Miranda Knight
Software Mentions: 2
Published: almost 6 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

10.1371/journal.pcbi.1003007

Cleavage Entropy as Quantitative Measure of Protease Specificity
Cited by: 50
Author(s): Julian E. Fuchs, Susanne von Grafenstein, Roland G. Huber, Michael A. Margreiter, Gudrun M. Spitzer, Hannes G. Wallnoefer, Klaus R. Liedl
Software Mentions: 2
Published: over 12 years ago

10.1038/s41598-019-56499-4

A Structurally-Validated Multiple Sequence Alignment of 497 Human Protein Kinase Domains
Cited by: 68
Author(s): Vivek Modi, Roland L. Dunbrack
Software Mentions: 2
Published: almost 6 years ago

10.1038/s41598-019-56458-z

Conformational and functional characterization of artificially conjugated non-canonical ubiquitin dimers
Cited by: 7
Author(s): Tobias Schneider, Andrej Berg, Zeynel Ulusoy, Martin Gamerdinger, Christine Peter, Michael Kovermann
Software Mentions: 2
Published: almost 6 years ago

10.1038/s41598-019-56557-x

Structure-Guided Design of a Fluorescent Probe for the Visualization of FtsZ in Clinically Important Gram-Positive and Gram-Negative Bacterial Pathogens
Cited by: 20
Author(s): Edgar Ferrer-González, Junnosuke Fujita, Takumi Yoshizawa, Julia M. Nelson, Alyssa Pilch, Elani Hillman, M. Ozawa, Natsuko Kuroda, Hassan Al-Tameemi, Jeffrey M. Boyd, Edmond J. LaVoie, Hideki Matsumura, Daniel S. Pilch
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pone.0032070

Recognition of Anesthetic Barbiturates by a Protein Binding Site: A High Resolution Structural Analysis
Cited by: 13
Author(s): Simon Oakley, L.S. Vedula, Weiming Bu, Qing Cheng Meng, Xi Jin, Renyu Liu, Roderic G. Eckenhoff, Patrick J. Loll
Software Mentions: 2
Published: almost 14 years ago

10.1038/s41598-019-56257-6

High resolution structural and functional analysis of a hemopexin motif protein from Dolichos
Cited by: 0
Author(s): Sarita Chandan Sharma, Ashish Kumar, Sharad Vashisht, Dinakar M. Salunke
Software Mentions: 2
Published: almost 6 years ago

10.1038/s41598-019-56135-1

Shortening injection matrix for serial crystallography
Cited by: 29
Author(s): Ki Hyun Nam
Software Mentions: 2
Published: almost 6 years ago

10.3390/cancers12040813

Ensartinib (X-396) Effectively Modulates Pharmacokinetic Resistance Mediated by ABCB1 and ABCG2 Drug Efflux Transporters and CYP3A4 Biotransformation Enzyme
Cited by: 19
Author(s): Dimitrios Vagiannis, Eva Novotná, Adam Skarka, Sarah Kammerer, Jan-Heiner Küpper, Si Chen, Lei Guo, František Štaud, Jakub Hofman
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-019-56825-w

Structural insights into the promiscuous DNA binding and broad substrate selectivity of fowlpox virus resolvase
Cited by: 1
Author(s): Na Li, Ke Shi, Timsi Rao, Surajit Banerjee, Hideki Aihara
Software Mentions: 2
Published: almost 6 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

10.1038/s41598-020-57419-7

Conformational changes in Apolipoprotein N-acyltransferase (Lnt)
Cited by: 6
Author(s): B. Wiseman, Martin Högbom
Software Mentions: 2
Published: almost 6 years ago

10.3390/cancers12020456

An Epitope on EGFR Loading Catastrophic Internalization Serve as a Novel Oncotarget for Hepatocellular Carcinoma Therapy
Cited by: 0
Author(s): Dianshuai Huang, Qingjie Fan, Zhiyi Liu, Shuqin Zhang, Wei Huang, Hongrui Li, Chaozhao Liang, Fenyong Sun
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pone.0022337

The Crystal Structure of the Human Co-Chaperone P58IPK
Cited by: 19
Author(s): Maria Svärd, Ekaterina Biterova, Jean-Marie Bourhis, Jodie E. Guy
Software Mentions: 2
Published: over 14 years ago

10.3390/ijms21114146

Linking Biochemical and Structural States of SERCA: Achievements, Challenges, and New Opportunities
Cited by: 32
Author(s): Rodrigo Aguayo‐Ortiz, L. Michel Espinoza-Fonseca
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0134697

A Teach-Discover-Treat Application of ZincPharmer: An Online Interactive Pharmacophore Modeling and Virtual Screening Tool
Cited by: 15
Author(s): David Ryan Koes, Nicolas A Pabon, Xingming Deng, Margaret A. Phillips, Carlos J. Camacho
Software Mentions: 2
Published: over 10 years ago

10.1038/s41598-020-58316-9

Comparative study of the interactions between fungal transcription factor nuclear localization sequences with mammalian and fungal importin-alpha
Cited by: 7
Author(s): Natália Elisa Bernardes, C.A. Fukuda, Tainá D. da Silva, H.C. Oliveira, Andrea C. de Barros, Thiago R. Dreyer, Maria Célia Bertolini, Marcos R.M. Fontes
Software Mentions: 2
Published: almost 6 years ago

10.1038/srep08560

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

10.1371/journal.pone.0045379

BioFET-SIM Web Interface: Implementation and Two Applications
Cited by: 10
Author(s): Martin R. Hediger, Jan H. Jensen, Luca De Vico
Software Mentions: 2
Published: about 13 years ago

10.1016/j.cell.2020.01.010

Restriction of HIV-1 Escape by a Highly Broad and Potent Neutralizing Antibody
Cited by: 89
Author(s): Philipp Schommers, Henning Gruell, Morgan E. Abernathy, My-Kim Tran, Adam S. Dingens, Harry B. Gristick, Christopher O. Barnes, Till Schoofs, Maike Schlotz, Kanika Vanshylla, Christoph Kreer, Daniela Weiland, Udo Holtick, Christof Scheid, Markus M. Valter, Marit J. van Gils, Rogier W. Sanders, Jörg Janne Vehreschild, Oliver A. Cornely, Clara Lehmann, Gerd Fätkenheuer, Michael S. Seaman, Jesse D Bloom, Pamela J. Björkman, Florian Klein
Software Mentions: 2
Published: almost 6 years ago

10.1016/j.cell.2021.06.020

Reduced neutralization of SARS-CoV-2 B.1.617 by vaccine and convalescent serum
Cited by: 571
Author(s): C Liu, H. Ginn, Wanwisa Dejnirattisai, Piyada Supasa, Beibei Wang, Aekkachai Tuekprakhon, Rungtiwa Nutalai, Daming Zhou, Alexander J. Mentzer, Yuguang Zhao, Duyvesteyn Hme., César López-Camacho, J Slon-Campos, T S Walter, Donal Skelly, Síle A. Johnson, Thomas G. Ritter, Chris Mason, Sue Ann Costa Clemens, Felipe Gomes Naveca, Valdinete Alves do Nascimento, Fernanda Nascimento, Cristiano Fernandes da Costa, Paola Cristina Resende, Alex Pauvolid‐Corrêa, Marilda Mendonça Siqueira, Christina Dold, Nigel Temperton, Tao Dong, Andrew J. Pollard, Julian C. Knight, Derrick W. Crook, Teresa Lambe, Elizabeth A. Clutterbuck, Sagida Bibi, Amy Flaxman, Mustapha Bittaye, Sandra Belij‐Rammerstorfer, Sarah C. Gilbert, Tariq Malik, Miles W. Carroll, Paul Klenerman, Eleanor Barnes, Susanna Dunachie, Vicky L. Baillie, Natali Serafin, Zanele Ditse, K Da Silva, Neil G. Paterson, Mark A. Williams, David R. Hall, Shabir A. Madhi, Marta C Nunes, Philip Goulder, Elizabeth E. Fry, Juthathip Mongkolsapaya, Jingshan Ren, D.I. Stuart, Gavin Screaton
Software Mentions: 2
Published: over 4 years ago

10.1016/j.cell.2021.03.055

Antibody evasion by the P.1 strain of SARS-CoV-2
Cited by: 480
Author(s): Wanwisa Dejnirattisai, Daming Zhou, Piyada Supasa, C Liu, Alexander J. Mentzer, H. Ginn, Yuguang Zhao, Duyvesteyn Hme., Aekkachai Tuekprakhon, Rungtiwa Nutalai, Beibei Wang, César López-Camacho, J Slon-Campos, Thomas S. Walter, Donal Skelly, Sue Ann Costa Clemens, Felipe Gomes Naveca, Valdinete Alves do Nascimento, Felipe Franco Nascimento, Cristiano Fernandes da Costa, Paola Cristina Resende, Alex Pauvolid‐Corrêa, Marilda Mendonça Siqueira, Christina Dold, Robert H. Levin, Tao Dong, Andrew J. Pollard, Julian C. Knight, Derrick W. Crook, Teresa Lambe, Elizabeth A. Clutterbuck, Sagida Bibi, Amy Flaxman, Mustapha Bittaye, Sandra Belij‐Rammerstorfer, Sarah C. Gilbert, Miles W. Carroll, Paul Klenerman, Eleanor Barnes, Susanna Dunachie, Neil G. Paterson, Mark A. Williams, ' Hall, Ruben J.G. Hulswit, Thomas A. Bowden, Elizabeth E. Fry, Juthathip Mongkolsapaya, Jingshan Ren, D.I. Stuart, Gavin Screaton
Software Mentions: 2
Published: over 4 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

10.3390/molecules25071751

Arylaminopropanone Derivatives as Potential Cholinesterase Inhibitors: Synthesis, Docking Study and Biological Evaluation
Cited by: 3
Author(s): Anna Hudcová, Aleš Kroutil, Renata Kubínová, Adriana Garro, Lucas Gutiérrez, Ricardo D. Enriz, Michal Oravec, Jozef Csöllei
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-020-59948-7

An endocannabinoid catabolic enzyme FAAH and its paralogs in an early land plant reveal evolutionary and functional relationship with eukaryotic orthologs
Cited by: 6
Author(s): Imdadul Haq, Aruna Kilaru
Software Mentions: 2
Published: over 5 years ago

10.1016/j.cell.2018.10.037

Structures of DPAGT1 Explain Glycosylation Disease Mechanisms and Advance TB Antibiotic Design
Cited by: 52
Author(s): Yin Dong, Hua Wang, A.C.W. Pike, Stephen A. Cochrane, Sadra Hamedzadeh, Filip J. Wyszyński, S.R. Bushell, Sylvain Royer, David A. Widdick, Andaleeb Sajid, Helena I. Boshoff, Yumi Park, Ricardo Dantas de Lucas, Weimin Liu, Seung Seo Lee, Takuya Machida, Leanne Minall, Shahid Mehmood, Katsiaryna Belaya, Weiwei Liu, Amy Chu, L. Shrestha, Shubhashish M.M. Mukhopadhyay, Claire Strain-Damerell, R. Chalk, N. Burgess-Brown, Mervyn J. Bibb, Clifton E. Barry, Carol V. Robinson, David Beeson, Benjamin G. Davis, E.P. Carpenter
Software Mentions: 2
Published: about 7 years ago

10.1016/j.cell.2017.06.025

Development of a Novel Lead that Targets M. tuberculosis Polyketide Synthase 13
Cited by: 115
Author(s): Anup Aggarwal, Maloy Kumar Parai, N.D. Shetty, Deeann Wallis, Lisa K. Woolhiser, Courtney Hastings, Noton K. Dutta, Stacy Galaviz, Ramesh Dhakal, Rupesh Shrestha, Shoko Wakabayashi, Chris Walpole, David J. Matthews, David M. Floyd, Paul Scullion, Jennifer Riley, Ola Epemolu, Suzanne Norval, Thomas Snavely, Gregory T. Robertson, Eric J. Rubín, Thomas R. Ioerger, F A Sirgel, Ruben van der Merwe, Paul D. van Helden, Peter M. Keller, Erik C. Böttger, Petros C. Karakousis, Anne J. Lenaerts, James C. Sacchettini
Software Mentions: 2
Published: over 8 years ago

10.3389/fgene.2021.657970

New Insights Into Structure and Function of TIFY Genes in Zea mays and Solanum lycopersicum: A Genome-Wide Comprehensive Analysis
Cited by: 26
Author(s): Parviz Heidari, Sahar Faraji, Mostafa Ahmadizadeh, Sunny Ahmar, Freddy Mora‐Poblete
Software Mentions: 2
Published: over 4 years ago

10.1038/s41598-020-60344-4

Distinct surfaces on Cdc5/PLK Polo-box domain orchestrate combinatorial substrate recognition during cell division
Cited by: 8
Author(s): A.W. Almawi, Laurence Langlois-Lemay, Stephen Boulton, Juan José Pulido González, Giuseppe Melacini, Damien D’Amours, Alba Guarné
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

10.1042/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

10.1371/journal.pone.0087267

Crystal Structure of Arginine Methyltransferase 6 from Trypanosoma brucei
Cited by: 23
Author(s): Chongyuan Wang, Yuwei Zhu, Jiajia Chen, Xu Li, Junxia Peng, Jiajing Chen, Yang Zou, Zhiyong Zhang, Hongtao Jin, Pengyuan Yang, Jihui Wu, Liwen Niu, Qingguo Gong, Maikun Teng, Yunyu Shi
Software Mentions: 2
Published: almost 12 years ago

10.1016/j.cell.2021.01.037

Circulating SARS-CoV-2 spike N439K variants maintain fitness while evading antibody-mediated immunity
Cited by: 508
Author(s): Emma C. Thomson, Laura E. Rosen, James G. Shepherd, Roberto Spreafico, Ana da Silva Filipe, Jason A. Wojcechowskyj, Chris Davis, Luca Piccoli, David Pascall, Josh R Dillen, Spyros Lytras, Nadine Czudnochowski, Rajiv Shah, Marcel Meury, Natasha Jesudason, Anna De Marco, Kathy Li, Jessica Bassi, Áine O’Toole, Dora Pinto, Rachel Colquhoun, Katja Culap, Ben Jackson, Fabrizia Zatta, Andrew Rambaut, Stefano Jaconi, Vattipally B Sreenu, Jay C. Nix, Ivy Zhang, Ruth F. Jarrett, William G. Glass, Martina Beltramello, Kyriaki Nomikou, Matteo Samuele Pizzuto, L. Tong, Elisabetta Cameroni, Tristan I. Croll, Natasha Johnson, Julia di Iulio, Arthur Wickenhagen, Alessandro Ceschi, Aoife M Harbison, Daniel Mair, Paolo Ferrari, Katherine Smollett, Federica Sallusto, Stephen Carmichael, Christian Garzoni, Jenna Nichols, Massimo Galli, Joseph Hughes, Agostino Riva, Antonia Ho, Marco Schiuma, Malcolm G Semple, Peter Openshaw, Elisa Fadda, J Kenneth Baillie, John D. Chodera, Suzannah J. Rihn, Samantha Lycett, Herbert W. Virgin, Amalio Telenti, Davide Corti, David L. Robertson, Gyorgy Snell
Software Mentions: 2
Published: over 4 years ago