10.1007/s00894-012-1563-4

Principal component and clustering analysis on molecular dynamics data of the ribosomal L11·23S subdomain
Cited by: 94
Author(s): Antje Wolf, Karl N. Kirschner
Software Mentions: 2
Published: almost 14 years ago

10.7554/eLife.61803

A paucigranulocytic asthma host environment promotes the emergence of virulent influenza viral variants
Cited by: 4
Author(s): Katina D. Hulme, Anjana C. Karawita, Cassandra L. Pegg, Myrna J. M. Bunte, Helle Bielefeldt‐Ohmann, Conor J. Bloxham, Silvie Van den Hoecke, Yin Xiang Setoh, Bram Vrancken, Monique I. Spronken, Lauren E. Steele, Nathalie A. J. Verzele, Kyle R. Upton, Alexander A. Khromykh, Keng Yih Chew, Maria B. Sukkar, Simon Phipps, Kirsty R. Short
Software Mentions: 2
Published: over 5 years ago

10.7554/eLife.61991

A broadly neutralizing macaque monoclonal antibody against the HIV-1 V3-Glycan patch
Cited by: 9
Author(s): Zijun Wang, Christopher O. Barnes, Rajeev Gautam, Julio C. C. Lorenzi, Christian T. Mayer, Thiago Y. Oliveira, Víctor Ramos, Melissa Cipolla, Kristie Gordon, Harry B. Gristick, Anthony P. West, Yoshiaki Nishimura, Henna Raina, Michael S. Seaman, Anna Gazumyan, Malcolm A. Martin, Pamela J. Björkman, Michel C. Nussenzweig, Amelia Escolano
Software Mentions: 2
Published: over 5 years ago

10.7554/eLife.38433

Structural relationship between the putative hair cell mechanotransduction channel TMC1 and TMEM16 proteins
Cited by: 80
Author(s): Ángela Ballesteros, Cristina Fenollar–Ferrer, Kenton J. Swartz
Software Mentions: 2
Published: almost 8 years ago

10.7554/eLife.65903

The crystal structure of bromide-bound GtACR1 reveals a pre-activated state in the transmembrane anion tunnel
Cited by: 10
Author(s): Hai Li, Chia‐Ying Huang, Elena G. Govorunova, Oleg A. Sineshchekov, Adrian Yi, Kenneth J. Rothschild, Meitian Wang, Lei Zheng, John L. Spudich
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.pone.0204026

Etersalate prevents the formations of 6Aβ16-22 oligomer: An in silico study
Cited by: 11
Author(s): Son Tung Ngo, Xuan-Cuong Luu, Nguyen Thanh Nguyen, Van V. Vu, Huong Thi Thu Phung
Software Mentions: 2
Published: almost 8 years ago

10.1371/journal.pone.0032336

Myelin 2′,3′-Cyclic Nucleotide 3′-Phosphodiesterase: Active-Site Ligand Binding and Molecular Conformation
Cited by: 31
Author(s): Matti Myllykoski, Arne Raasakka, Huijong Han, Petri Kursula
Software Mentions: 2
Published: over 14 years ago

10.1038/s41598-018-21357-2

Permeability and ammonia selectivity in aquaporin TIP2;1: linking structure to function
Cited by: 23
Author(s): Viveca Lindahl, Pontus Gourdon, Magnus Andersson, Berk Hess
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-018-21614-4

A multitarget approach to drug discovery inhibiting Mycobacterium tuberculosis PyrG and PanK
Cited by: 33
Author(s): Laurent R. Chiarelli, Giorgia Mori, Béatrice Silvia Orena, Marta Esposito, Thomas R. Lane, Ana Luisa de Jesus Lopes Ribeiro, Giulia Degiacomi, Júlia Zemanová, Sára Szádocka, Stanislav Huszár, Zuzana Palčeková, Marcello Manfredi, Fabio Gosetti, Joël Lelièvre, Lluís Ballell, Elena Kazakova, Vadim Makarov, Emílio Marengo, Katarı́na Mikušová, Stewart T. Cole, Giovanna Riccardi, Sean Ekins, Maria Rosalia Pasca
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-018-24467-z

Evolutionary convergence and divergence in archaeal chromosomal proteins and Chromo-like domains from bacteria and eukaryotes
Cited by: 19
Author(s): Gurmeet Kaur, Lakshminarayan M. Iyer, S. Subramanian, L. Aravind
Software Mentions: 2
Published: about 8 years ago

10.7554/eLife.68710

Structure of Escherichia coli respiratory complex I reconstituted into lipid nanodiscs reveals an uncoupled conformation
Cited by: 34
Author(s): P. Kolata, Rouslan G. Efremov
Software Mentions: 2
Published: almost 5 years ago

10.1371/journal.pone.0046838

Fluorescence of Alexa Fluor Dye Tracks Protein Folding
Cited by: 25
Author(s): Simon Lindhoud, Adrie H. Westphal, Antonie J. W. G. Visser, Jan Willem Borst, C.P.M. van Mierlo
Software Mentions: 2
Published: over 13 years ago

10.7554/eLife.32893

IRS-1 acts as an endocytic regulator of IGF-I receptor to facilitate sustained IGF signaling
Cited by: 39
Author(s): Yoshimasa Yoneyama, Peter Lanzerstorfer, Hideaki Niwa, Takashi Umehara, Takashi Shibano, Shigeyuki Yokoyama, Kazuhiro Chida, Julian Weghuber, Fumihiko Hakuno, Shinichiro Takahashi
Software Mentions: 2
Published: about 8 years ago

10.7554/eLife.28384

Cryo-EM structure of the SAGA and NuA4 coactivator subunit Tra1 at 3.7 angstrom resolution
Cited by: 35
Author(s): Luis Miguel Díaz-Santín, Natalya Lukoyanova, Emir Aciyan, Alan C. M. Cheung
Software Mentions: 2
Published: almost 9 years ago

10.7554/eLife.37373

Evolution of cation binding in the active sites of P-loop nucleoside triphosphatases in relation to the basic catalytic mechanism
Cited by: 35
Author(s): Daria N. Shalaeva, Dmitry A. Cherepanov, Michael Y. Galperin, Andrey V. Golovin, Armen Y. Mulkidjanian
Software Mentions: 2
Published: over 7 years ago

10.3390/ijms19092772

Insight into the Self-Assembling Properties of Peptergents: A Molecular Dynamics Simulation Study
Cited by: 3
Author(s): Jean-Marc Crowet, Mehmet Nail Nasir, Nicolas Dony, Antoine Deschamps, Vincent Stroobant, Pierre Morsomme, Magali Deleu, Patrice Soumillion, Laurence Lins
Software Mentions: 2
Published: almost 8 years ago

10.3390/ijms19113579

Novel Findings of Anti-Filarial Drug Target and Structure-Based Virtual Screening for Drug Discovery
Cited by: 7
Author(s): Tae Woo Choi, Jeong Hoon Cho, Joohong Ahnn, Hyun Ok Song
Software Mentions: 2
Published: over 7 years ago

10.3390/ijms20061392

Crystal Structure of the Cyclostreptin-Tubulin Adduct: Implications for Tubulin Activation by Taxane-Site Ligands
Cited by: 23
Author(s): Francisco de Asís Balaguer, Tobias Mühlethaler, Juan Estévez-Gallego, Enrique Calvo, Juan F. Giménez-Abián, April L. Risinger, Erik J. Sorensen, Christopher D. Vanderwal, Karl‐Heinz Altmann, Susan L. Mooberry, Michel O. Steinmetz, M.A. Oliva, A.E. Prota, J. Fernando Díaz
Software Mentions: 2
Published: over 7 years ago

10.3390/ijms20071666

A Molecular Dynamics Approach to Explore the Intramolecular Signal Transduction of PPAR-α
Cited by: 17
Author(s): Shaherin Basith, Balachandran Manavalan, Tae Hwan Shin, Gwang Lee
Software Mentions: 2
Published: over 7 years ago

10.3390/ijms20205085

Crystal Structure-Based Exploration of Arginine-Containing Peptide Binding in the ADP-Ribosyltransferase Domain of the Type III Effector XopAI Protein
Cited by: 5
Author(s): Jyung-Hurng Liu, Jun-Yi Yang, Duen-Wei Hsu, Yi-Hua Lai, Yun-Pei Li, Yi-Rung Tsai, Ming-Hon Hou
Software Mentions: 2
Published: over 6 years ago

10.3390/molecules26020270

Dynamic Preference for NADP/H Cofactor Binding/Release in E. coli YqhD Oxidoreductase
Cited by: 3
Author(s): Rajni Verma, J. Michael Ellis, Katie R. Mitchell-Koch
Software Mentions: 2
Published: over 5 years ago

10.3390/ijms20235921

Structure of Staphylococcal Enterotoxin N: Implications for Binding Properties to Its Cellular Proteins
Cited by: 4
Author(s): Chi Zeng, Zhaoxin Liu, Zhenggang Han
Software Mentions: 2
Published: over 6 years ago

10.3390/ijms21010083

The Structure of Sucrose-Soaked Levansucrase Crystals from Erwinia tasmaniensis reveals a Binding Pocket for Levanbiose
Cited by: 14
Author(s): Ivan Polsinelli, Rosanna Caliandro, Nicola Demitri, Stefano Benini
Software Mentions: 2
Published: over 6 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: about 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: about 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: about 6 years ago

10.1098/rsob.190258

Myriapod haemocyanin: the first three-dimensional reconstruction of <i>Scolopendra subspinipes</i> and preliminary structural analysis of <i>S. viridicornis</i>
Cited by: 1
Author(s): Katie Cristina Takeuti Riciluca, Antônio Carlos Borges, J. F. R. Mello, Úrsula Castro de Oliveira, D. C. Serdan, A. Florez-Ariza, Elisa Chaparro, Milton Yutaka Nishiyama, Alexandre Cassago, Inácio L.M. Junqueira-de-Azevedo, Marin van Heel, P. I. Silva, Rodrigo Villares Portugal
Software Mentions: 2
Published: over 6 years ago

10.1016/j.jsb.2016.01.016

Easy mammalian expression and crystallography of maltose-binding protein-fused human proteins
Cited by: 31
Author(s): Marcel Bokhove, Hamed Sadat Al Hosseini, Takako Saitô, Elisa Dioguardi, Katharina Gegenschatz‐Schmid, Kaoru Nishimura, Isha Raj, Daniele de Sanctis, Ling Han, Luca Jovine
Software Mentions: 2
Published: over 10 years ago

10.1016/j.yjsbx.2020.100024

Cryo-electron microscopic and X-ray crystallographic analysis of the light-driven proton pump proteorhodopsin reveals a pentameric assembly
Cited by: 4
Author(s): Stephan Hirschi, David Kalbermatter, Zöhre Ucurum, Dimitrios Fotiadis
Software Mentions: 2
Published: over 6 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: over 9 years ago

10.1186/s12883-021-02215-7

Study of the collagen type VI alpha 3 (COL6A3) gene in Parkinson’s disease
Cited by: 5
Author(s): Chong‐Yao Jin, Ran Zheng, Zhi‐Hao Lin, Nai‐Jia Xue, Ying Chen, Ting Gao, Yiqun Yan, Yi Fang, Yaping Yan, Xinzhen Yin, Jun Tian, Jiali Pu, Baorong Zhang
Software Mentions: 2
Published: about 5 years ago

10.1107/S1600577515002131

Identifying and quantifying radiation damage at the atomic level
Cited by: 48
Author(s): Markus Gerstel, Charlotte M. Deane, Elspeth F. Garman
Software Mentions: 2
Published: over 11 years ago

10.1038/s41598-018-20899-9

Supersaturation-controlled microcrystallization and visualization analysis for serial femtosecond crystallography
Cited by: 5
Author(s): Dan Bi Lee, Jong Min Kim, Jong Hyeon Seok, Ji Hye Lee, Jae Deok Jo, Ji Young Mun, Chelsie E. Conrad, Jesse Coe, Gerrett Nelson, Brenda G. Hogue, Thomas A. White, Nadia A. Zatsepin, Uwe Weierstall, Anton Barty, Henry N. Chapman, Petra Fromme, John C. H. Spence, Mi Sook Chung, Chang Hyun Oh, Kyung Hyun Kim
Software Mentions: 2
Published: over 8 years ago

10.1128/JVI.01560-20

Orsay Virus CP-δ Adopts a Novel β-Bracelet Structural Fold and Incorporates into Virions as a Head Fiber
Cited by: 0
Author(s): Yusong R. Guo, Yingying Fan, Ying Zhou, Miao Jin, Jim L. Zhang, Hongbing Jiang, Matthew V. Holt, Tao Wang, Nicolas L. Young, David Wang, Weiwei Zhong, Yizhi Jane Tao
Software Mentions: 2
Published: over 5 years ago

10.1128/JVI.01253-17

NS3 from Hepatitis C Virus Strain JFH-1 Is an Unusually Robust Helicase That Is Primed To Bind and Unwind Viral RNA
Cited by: 11
Author(s): Ting Zhou, Xiao‐Ming Ren, Rebecca L. Adams, Anna Marie Pyle
Software Mentions: 2
Published: over 8 years ago

10.1128/JVI.01541-17

The Three-Fold Axis of the HIV-1 Capsid Lattice Is the Species-Specific Binding Interface for TRIM5α
Cited by: 20
Author(s): Damien Morger, Franziska Zosel, Martin Bühlmann, Sara Züger, Maximilian Mittelviefhaus, Benjamin Schuler, Jeremy Luban, Markus G. Grütter
Software Mentions: 2
Published: over 8 years ago

10.1128/JVI.00848-21

Structures of Substrate Complexes of Foamy Viral Protease-Reverse Transcriptase
Cited by: 2
Author(s): Martyna Nowacka, Elżbieta Nowak, Mariusz Czarnocki-Cieciura, Justyna Jackiewicz, Krzysztof Skowronek, Roman H. Szczepanowski, Birgitta M. Wöhrl, Marcin Nowotny
Software Mentions: 2
Published: almost 5 years ago

10.1186/1479-5876-10-35

Hyperglycemic conditions inhibit C3-mediated immunologic control of Staphylococcus aureus
Cited by: 37
Author(s): Pamela S. Hair, Charlene G. Echague, Reuben D. Rohn, Neel K. Krishna, Julius O. Nyalwidhe, Kenji M. Cunnion
Software Mentions: 2
Published: over 14 years ago

10.3390/nu11122961

The Potential Synergistic Modulation of AMPK by Lippia citriodora Compounds as a Target in Metabolic Disorders
Cited by: 14
Author(s): Mariló Olivares-Vicente, Noelia Sánchez‐Marzo, José Antonio Encinar, María de la Luz Cádiz-Gurrea, Jesús Lozano-Sánchez, Antonio Segura‐Carretero, David Arráez-Román, Catherine Riva, Enrique Barrajón‐Catalán, María Herranz-López, Vicente Micol
Software Mentions: 2
Published: over 6 years ago

10.1038/s41598-018-19526-4

Blocking Zika virus vertical transmission
Cited by: 51
Author(s): Pinar Mesci, Angela Mácia, Spencer M. Moore, Sergey A. Shiryaev, Antonella Pinto, Chun-Teng Huang, Leon Tejwani, Isabella Rodrigues Fernandes, Nicole A. Suarez, Matthew J. Kolar, Sandro Montefusco, Scott Rosenberg, Roberto H. Herai, Fernanda R. Cugola, Fabiele Baldino Russo, Nicholas Sheets, Alan Saghatelian, Sujan Shresta, Jeremiah D. Momper, Jair L. Siqueira-Neto, K.D. Corbett, Patrícia Cristina Baleeiro Beltrão-Braga, Alexey V. Terskikh, Alysson R. Muotri
Software Mentions: 2
Published: over 8 years ago

10.3390/vaccines8030448

Immunogenicity and Protective Efficacy of Influenza A DNA Vaccines Encoding Artificial Antigens Based on Conservative Hemagglutinin Stem Region and M2 Protein in Mice
Cited by: 7
Author(s): Sergei I. Bazhan, Денис Антонец, Ekaterina V. Starostina, T. N. Ilyicheva, О. Н. Каплина, Vasiliy Y. Marchenko, А. Г. Дурыманов, С. Ф. Орешкова, Larisa I. Karpenko
Software Mentions: 2
Published: almost 6 years ago

10.1371/journal.pone.0114903

An Integrative Computational Approach for Prioritization of Genomic Variants
Cited by: 7
Author(s): Inna Dubchak, Sandhya Balasubramanian, Sheng Wang, Cem Meyden, Dinanath Sulakhe, Alexander Poliakov, Daniela Börnigen, Bingqing Xie, Andrew Taylor, Jianzhu Ma, Alex R. Paciorkowski, Ghayda Mirzaa, Paul Dave, Gady Agam, Jinbo Xu, Lihadh Al‐Gazali, Christopher E. Mason, M. Elizabeth Ross, Natalia Maltsev, T. Conrad Gilliam
Software Mentions: 2
Published: over 11 years ago

10.3390/vaccines6010001

Structural Analysis and Epitope Prediction of MHC Class-1-Chain Related Protein-A for Cancer Vaccine Development
Cited by: 16
Author(s): Tayo Alex Adekiya, Raphael Taiwo Aruleba, Sbonelo Khanyile, Priscilla Masamba, Babatunji Emmanuel Oyinloye, Abidemi Paul Kappo
Software Mentions: 2
Published: over 8 years ago

10.1186/s40360-021-00511-z

Plumbagin can potently enhance the activity of xanthine oxidase: in vitro, in vivo and in silico studies
Cited by: 2
Author(s): Liang Yue, Nan Jiang, Anguo Wu, Wen-Qiao Qiu, Xin Shen, Da‐Lian Qin, Hong Li, Lin Jia, Sisi Liang, Jianming Wu
Software Mentions: 2
Published: almost 5 years ago

10.15252/msb.20188371

Deep scanning lysine metabolism in <i>Escherichia coli</i>
Cited by: 31
Author(s): Marcelo C. Bassalo, Andrew D. Garst, Alaksh Choudhury, William C Grau, Eun‐Suok Oh, Eileen Spindler, Tanya Warnecke Lipscomb, Ryan T. Gill
Software Mentions: 2
Published: over 7 years ago

10.1038/s41598-018-20925-w

Conserved, unstructured regions in Pseudomonas aeruginosa PilO are important for type IVa pilus function
Cited by: 12
Author(s): Tiffany L. Leighton, Mac C.Y. Mok, M.S. Junop, P. Lynne Howell, Lori L. Burrows
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pone.0231513

Crystal structure of β-L-arabinobiosidase belonging to glycoside hydrolase family 121
Cited by: 8
Author(s): Keita Saito, Alexander Holm Viborg, Shiho Sakamoto, T. Arakawa, Chihaya Yamada, Kiyotaka Fujita, Shinya Fushinobu
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.pone.0239702

SAXS studies of X-ray induced disulfide bond damage: Engineering high-resolution insight from a low-resolution technique
Cited by: 7
Author(s): Timothy R. Stachowski, M. Elizabeth Snell, Edward H. Snell
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0251067

Heterogeneous multimeric structure of isocitrate lyase in complex with succinate and itaconate provides novel insights into its inhibitory mechanism
Cited by: 4
Author(s): Sunghoon Kwon, Hye Lin Chun, Hyekyung Ha, So Yeon Lee, Hyun Ho Park
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-017-16846-9

Combined genetic approaches yield a 48% diagnostic rate in a large cohort of French hearing-impaired patients
Cited by: 55
Author(s): David Baux, Christel Vaché, Christophe Blanchet, Marjolaine Willems, Claude Baudoin, Mélodie Moclyn, Valérie Faugère, Renaud Touraine, Bertrand Isidor, Delphine Dupin-Deguine, Mathilde Nizon, Marie‐Françoise Vincent, Sandra Mercier, C. Calais, Gema García‐García, Z. Azher, Linda M. Lambert, Yaumara Perdomo-Trujillo, Fabienne Giuliano, Mireille Claustres, M. Kœnig, M. Mondain, Anne‐Françoise Roux
Software Mentions: 2
Published: over 8 years ago

10.1186/s12866-021-02244-9

Structural insights into acyl-ACP selective recognition by the Aeromonas hydrophila AHL synthase AhyI
Cited by: 0
Author(s): Lan Jin, Jingjiao Bao, Yu Chen, Wenge Yang, Wenyi Du
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-017-16427-w

Allosteric inhibitor remotely modulates the conformation of the orthestric pockets in mutant IDH2/R140Q
Cited by: 18
Author(s): Jiao Chen, Jie Yang, Xianqiang Sun, Zhongming Wang, Xiaolan Cheng, Wei Lü, Xueting Cai, Chunping Hu, Xu Shen, Peng Cao
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-17600-x

Development of Erasin: a chromone-based STAT3 inhibitor which induces apoptosis in Erlotinib-resistant lung cancer cells
Cited by: 18
Author(s): Christian Lis, Stefan Rubner, Martin Roatsch, Angela Berg, Tyler Gilcrest, Darwin Y. Fu, Elizabeth Dong Nguyen, Annemarie Schmidt, Harald Krautscheid, Jens Meiler, Thorsten Berg
Software Mentions: 2
Published: over 8 years ago

10.1371/journal.pone.0206143

Primary structures of different isoforms of buffalo pregnancy-associated glycoproteins (BuPAGs) during early pregnancy and elucidation of the 3-dimensional structure of the most abundant isoform BuPAG 7
Cited by: 7
Author(s): Masoud Lotfan, Suman Choudhary, Munna Lal Yadav, Sudarshan Kumar, Surender Singh, Shveta Bathla, Preeti Rawat, Jai K. Kaushik, Ashok Kumar Mohanty
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0067536

Towards Ligand Docking Including Explicit Interface Water Molecules
Cited by: 58
Author(s): Gordon Lemmon, Jens Meiler
Software Mentions: 2
Published: about 13 years ago

10.1038/s41598-018-21218-y

The Extracellular Domain of Pollen Receptor Kinase 3 is structurally similar to the SERK family of co-receptors
Cited by: 11
Author(s): Sayan Chakraborty, Haiyun Pan, Qingyu Tang, Colin Woolard, Gang Xu
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-020-77230-8

Structural and functional characterization of M. tuberculosis sedoheptulose- 7-phosphate isomerase, a critical enzyme involved in lipopolysaccharide biosynthetic pathway
Cited by: 2
Author(s): Sumita Karan, Bhanu Pratap, Shiv Pratap Singh Yadav, Fnu Ashish, Ajay K. Saxena
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0082484

Structure-Based Analysis of A19D, a Variant of Transthyretin Involved in Familial Amyloid Cardiomyopathy
Cited by: 5
Author(s): Priscila S. Ferreira, Oliveira Sant’Anna, Nathalia Varejão, Cristina Ferreira Lima, Sérgio A. P. Novis, Renata V. Barbosa, Concy M. Caldeira, Franklin David Rumjanek, Salvador Ventura, Márcia Waddington Cruz, Débora Foguel
Software Mentions: 2
Published: over 12 years ago

10.1128/JVI.02511-16

Structural Definition of Duck Major Histocompatibility Complex Class I Molecules That Might Explain Efficient Cytotoxic T Lymphocyte Immunity to Influenza A Virus
Cited by: 16
Author(s): Yanan Wu, Junya Wang, Shenggen Fan, Rong Chen, Yanjie Liu, Jianhua Zhang, Hongyu Yuan, Ruiying Liang, Nianzhi Zhang, Chun Xia
Software Mentions: 2
Published: almost 9 years ago

10.1038/s41598-017-14008-5

Computational Analysis of the Molecular Mechanism of RamR Mutations Contributing to Antimicrobial Resistance in Salmonella enterica
Cited by: 6
Author(s): Yen‐Yi Liu, Chih-Chieh Chen
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-10357-3

Integrative Approach with Electrophysiological and Theoretical Methods Reveals a New Role of S4 Positively Charged Residues in PKD2L1 Channel Voltage-Sensing
Cited by: 7
Author(s): Tomohiro Numata, Kunichika Tsumoto, Kazunori Yamada, Tetsuji Kurokawa, Shinichi Hirose, Hideki Nomura, Mitsuhiro Kawano, Yoshihisa Kurachi, Ryuji Inoue, Yasuo Mori
Software Mentions: 2
Published: almost 9 years ago

10.1038/s41598-017-14101-9

Structure determination and activity manipulation of the turfgrass ABA receptor FePYR1
Cited by: 14
Author(s): Zhizhong Ren, Zhen Wang, Xin Zhou, Huazhong Shi, Yechun Hong, Min‐Jie Cao, Zhulong Chan, Lixin Xue, H. Eric Xu, Jian‐Kang Zhu
Software Mentions: 2
Published: over 8 years ago

10.1128/JVI.01601-16

Structure of Aichi Virus 1 and Its Empty Particle: Clues to Kobuvirus Genome Release Mechanism
Cited by: 12
Author(s): C. Sabin, T. Füzik, Karel Škubník, Lenka Pálková, Anders Lindberg, Pavel Plevka
Software Mentions: 2
Published: over 9 years ago

10.1038/srep18292

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

10.1371/journal.pone.0076876

Inhibition of Influenza A Virus Infection In Vitro by Peptides Designed In Silico
Cited by: 23
Author(s): Rogelio López-Martínez, G. Lizbeth Ramírez-Salinas, José Correa‐Basurto, Blanca Lilia Barrón
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.pone.0219436

Identification of lysine methylation in the core GTPase domain by GoMADScan
Cited by: 6
Author(s): Hirofumi Yoshino, Guowei Yin, Risa Karakida Kawaguchi, Konstantin Popov, Brenda Temple, Mika Sasaki, Satoshi Kofuji, Kara Wolfe, Kaori Kofuji, Kōichi Okumura, Jaskirat Randhawa, Akshiv Malhotra, Nazanin Majd, Yoshiki Ikeda, Hiroko Shimada, Emily Rose Kahoud, Sasson Haviv, Shigeki Iwase, John M. Asara, Sharon L. Campbell, Atsuo T. Sasaki
Software Mentions: 2
Published: almost 7 years ago

10.1038/srep18462

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

10.1038/s41598-017-14337-5

Structure based biophysical characterization of the PROPPIN Atg18 shows Atg18 oligomerization upon membrane binding
Cited by: 37
Author(s): Andreea Scacioc, Carla Schmidt, Tommy Hofmann, Henning Urlaub, Karin Kühnel, Ángel Pérez-Lara
Software Mentions: 2
Published: over 8 years ago

10.1038/srep10641

Novel EPHB4 Receptor Tyrosine Kinase Mutations and Kinomic Pathway Analysis in Lung Cancer
Cited by: 17
Author(s): Benjamin D. Ferguson, Yulong Tan, Rajani Kanteti, Ren Liu, Matthew Gayed, Everett E. Vokes, Mark K. Ferguson, A. John Iafrate, Parkash S. Gill, Ravi Salgia
Software Mentions: 2
Published: about 11 years ago

10.1038/srep08789

Substitution of tryptophan 89 with tyrosine switches the DNA binding mode of PC4
Cited by: 17
Author(s): Jinguang Huang, Yanxiang Zhao, Huaian Liu, Dan Huang, Xiankun Cheng, Wensheng Zhao, Ian A. Taylor, Junfeng Liu, You-Liang Peng
Software Mentions: 2
Published: over 11 years ago

10.1098/rsob.200218

Vulpeculin: a novel and abundant lipocalin in the urine of the common brushtail possum, <i>Trichosurus vulpecula</i>
Cited by: 2
Author(s): Grace M. Loxley, David O. Hooks, Aristotelis Antonopoulos, Anne Dell, Stuart M. Haslam, Wayne L. Linklater, Jane L. Hurst, Robert J. Beynon
Software Mentions: 2
Published: almost 6 years ago

10.1038/srep11666

Structural Features of a Bacteroidetes-Affiliated Cellulase Linked with a Polysaccharide Utilization Locus
Cited by: 21
Author(s): Adrian E. Naas, Alasdair Mackenzie, Bjoern Dalhus, Vincent G. H. Eijsink, Phillip B. Pope
Software Mentions: 2
Published: about 11 years ago

10.3390/molecules24122299

Molecular Informatics Studies of the Iron-Dependent Regulator (ideR) Reveal Potential Novel Anti-Mycobacterium ulcerans Natural Product-Derived Compounds
Cited by: 8
Author(s): Samuel K. Kwofie, Kweku S. Enninful, Jaleel A. Yussif, Lina A. Asante, Mavis Adjei, Kwabena Kan-Dapaah, Elvis K. Tiburu, Wilhelmina A. Mensah, Whelton A. Miller, Lydia Mosi, Michael D. Wilson
Software Mentions: 2
Published: about 7 years ago

10.1126/sciadv.abc1370

The structural basis for Z α ₁ -antitrypsin polymerization in the liver
Cited by: 23
Author(s): Sarah V. Faull, Emma Elliston, Bibek Gooptu, Alistair M. Jagger, Ibrahim Aldobiyan, Adam Redzej, Magd Badaoui, Nina Heyer-Chauhan, S. Tamir Rashid, Gary Reynolds, David Adams, Elena Miranda, Elena V. Orlova, James A. Irving, David A. Lomas
Software Mentions: 2
Published: over 5 years ago

10.1126/sciadv.abc6479

Structural basis for heme-dependent NCoR binding to the transcriptional repressor REV-ERBβ
Cited by: 12
Author(s): Sarah A. Mosure, Timothy S. Strutzenberg, Jinsai Shang, Paola Munoz-Tello, Laura A. Solt, Patrick R. Griffin, D.J. Kojetin
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0136396

Identification of a Cryptic Bacterial Promoter in Mouse (mdr1a) P-Glycoprotein cDNA
Cited by: 5
Author(s): Kristen M. Pluchino, Dominic Esposito, Janna K. Moen, Matthew D. Hall, James P. Madigan, Suneet Shukla, Lauren V. Procter, Vanessa Wall, Thomas D. Schneider, Ian A. Pringle, Suresh V. Ambudkar, Deborah R. Gill, Stephen C. Hyde, Michael M. Gottesman
Software Mentions: 2
Published: almost 11 years ago

10.1038/srep11863

Structural insights into the unique inhibitory mechanism of the silkworm protease inhibitor serpin18
Cited by: 22
Author(s): Pengchao Guo, Zhaoming Dong, Yan Zhang, Huawei He, Xiang Tan, Weiwei Zhang, Qingyou Xia
Software Mentions: 2
Published: about 11 years ago

10.1186/s13068-017-1006-7

Correlation of structure, function and protein dynamics in GH7 cellobiohydrolases from Trichoderma atroviride, T. reesei and T. harzianum
Cited by: 23
Author(s): Anna S. Borisova, Elena V. Eneyskaya, Suvamay Jana, Silke Flindt Badino, Jeppe Kari, Antonella Amore, Magnus Karlsson, Henrik Hansson, Mats Sandgren, Michael E. Himmel, Peter Westh, Christina M. Payne, Anna A. Kulminskaya, Jerry Ståhlberg
Software Mentions: 2
Published: over 8 years ago

10.1038/s41598-017-14953-1

Fragment-based screening identifies novel targets for inhibitors of conjugative transfer of antimicrobial resistance by plasmid pKM101
Cited by: 19
Author(s): Bastien Casu, T. Arya, Benoit Bessette, Christian Baron
Software Mentions: 2
Published: over 8 years ago

10.1016/j.sjbs.2021.02.073

Partial purification and characterization of 2, 4-diacetylphloroglucinol producing Pseudomonas fluorescens VSMKU3054 against bacterial wilt disease of tomato
Cited by: 11
Author(s): Perumal Suresh, Govintharaj Varathraju, Vellasamy Shanmugaiah, Khalid S. Almaary, Yahya B. Elbadawi, Ayman Mubarak
Software Mentions: 2
Published: over 5 years ago

10.1016/j.bpj.2021.01.012

Elucidation of interactions regulating conformational stability and dynamics of SARS-CoV-2 S-protein
Cited by: 49
Author(s): Takaharu Mori, Jaewoon Jung, Chigusa Kobayashi, Hisham Dokainish, Suyong Re, Yuji Sugita
Software Mentions: 2
Published: over 5 years ago

10.1126/sciadv.aav2623

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

10.1186/1742-4690-10-81

HIV-1 capsid undergoes coupled binding and isomerization by the nuclear pore protein NUP358
Cited by: 92
Author(s): Katsiaryna Bichel, Amanda J. Price, Torsten Schaller, Greg J. Towers, Stefan Freund, Leo C. James
Software Mentions: 2
Published: almost 13 years ago

10.21203/rs.3.rs-678247/v1

Cross neutralization of emerging SARS-CoV-2 variants of concern by antibodies targeting distinct epitopes on spike
Cited by: 3
Author(s): Patrick C. Wilson, Siriruk Changrob, Yanbin Fu, Jenna J. Guthmiller, Peter Halfmann, Lei Li, Christopher T. Stamper, Haley L. Dugan, Molly A. Accola, William M. Rehrauer, Na Zheng, Min Huang, Jiaolong Wang, Steven A. Erickson, Henry A. Utset, Hortencia M Graves, Fatima Amanat, D. Noah Sather, Florian Krammer, Yoshihiro Kawaoka
Software Mentions: 2
Published: almost 5 years ago

10.1186/1742-4690-2-59

Amino acid residues that are important for Hyal2 function as a receptor for jaagsiekte sheep retrovirus
Cited by: 13
Author(s): Fuh Mei Duh, Clarissa Dirks, Michael I. Lerman, A. Dusty Miller
Software Mentions: 2
Published: almost 21 years ago

10.1186/1742-4690-10-126

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

10.21203/rs.3.rs-77124/v1

Structure and Drug Binding of the SARS-CoV-2 Envelope Protein in Phospholipid Bilayers
Cited by: 3
Author(s): Venkata S. Mandala, Matthew J. McKay, A. Shcherbakov, Aurelio J. Dregni, Antonios Kolocouris, Mei Hong
Software Mentions: 2
Published: almost 6 years ago

10.1093/jxb/erx242

ACCERBATIN, a small molecule at the intersection of auxin and reactive oxygen species homeostasis with herbicidal properties
Cited by: 6
Author(s): Yuming Hu, Thomas Depaepe, Dajo Smet, Klára Hoyerová, Petr Klíma, Ann Cuypers, Sean R. Cutler, Dieter Buyst, Kris Morreel, Wout Boerjan, José Martins, Jan Petrášek, Filip Vandenbussche, Dominique Van Der Straeten
Software Mentions: 2
Published: almost 9 years ago

10.21203/rs.3.rs-40159/v1

Structure of human steroid 5&amp;#x03B1;-reductase 2 with anti-androgen drug finasteride
Cited by: 4
Author(s): Qiuping Xiao, Lei Wang, Shreyas Supekar, Tao Shen, Heng Liu, Fei Ye, Junzhou Huang, Hao Fan, Zhiyi Wei, Cheng Zhang
Software Mentions: 2
Published: almost 6 years ago

10.1002/jcc.26559

<scp> <i>MonteCarbo</i> </scp> : A software to generate and dock multifunctionalized ring molecules
Cited by: 0
Author(s): Santiago Alonso-Gil
Software Mentions: 2
Published: about 5 years ago

10.1080/14756366.2017.1370584

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

10.1371/journal.pone.0242383

The crystal structure of mouse IRG1 suggests that cis-aconitate decarboxylase has an open and closed conformation
Cited by: 4
Author(s): Hye Lin Chun, So Yeon Lee, Ki-Hwa Kim, Chang Sup Lee, Tae‐Jin Oh, Hyun Ho Park
Software Mentions: 2
Published: over 5 years ago

10.1186/1743-422X-5-150

Evolutionary and structural analyses of alpha-papillomavirus capsid proteins yields novel insights into L2 structure and interaction with L1
Cited by: 32
Author(s): John J. Lowe, Debasis Panda, Suzanne Rose, Ty Jensen, Willie A. Hughes, For Yue Tso, Peter C. Angeletti
Software Mentions: 2
Published: over 17 years ago

10.1080/14756366.2020.1837123

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

10.21203/rs.3.rs-625642/v1

Structures of synthetic nanobody–SARS-CoV-2–RBD complexes reveal distinct sites of interaction and recognition of variants
Cited by: 0
Author(s): David H. Margulies, Javeed Ahmad, Jiansheng Jiang, Lisa F. Boyd, Allison Zeher, Rick Huang, Di Xia, Kannan Natarajan
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-020-78877-z

Heat induces end to end repetitive association in P. furiosus l-asparaginase which enables its thermophilic property
Cited by: 7
Author(s): Pankaj Sharma, Rachana Tomar, Shivpratap Singh Yadav, Maulik D. Badmalia, Samir K. Nath, . Ashish, Bishwajit Kundu
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0061953

Crystal Structure of an Anti-Ang2 CrossFab Demonstrates Complete Structural and Functional Integrity of the Variable Domain
Cited by: 29
Author(s): Sebastian Fenn, Christian Schiller, Julia J. Griese, Harald Duerr, Sabine Imhof-Jung, Christian Gassner, Joerg Moelleken, Jörg T. Regula, W. Schaefer, Markus Thomas, Christian Klein, Karl‐Peter Hopfner, Hubert Kettenberger
Software Mentions: 2
Published: about 13 years ago

10.7554/eLife.36340

Structural basis for potent and broad inhibition of HIV-1 RT by thiophene[3,2-d]pyrimidine non-nucleoside inhibitors
Cited by: 53
Author(s): Yang Yang, Dongwei Kang, Laura A. Nguyen, Z.B. Smithline, Christophe Pannecouque, Peng Zhan, Xinyong Liu, Thomas A. Steitz
Software Mentions: 2
Published: almost 8 years ago

10.1042/BSR20180231

Cysteine modifiers suggest an allosteric inhibitory site on the CAL PDZ domain
Cited by: 8
Author(s): Yu Zhao, Patrick R. Cushing, David C. Smithson, Maria Pellegrini, Alexandre A. Pletnev, Sahar Al-Ayyoubi, Andrew V. Grassetti, Scott A. Gerber, R. Kiplin Guy, Dean R. Madden
Software Mentions: 2
Published: about 8 years ago

10.1186/s13321-020-00460-5

Molecular representations in AI-driven drug discovery: a review and practical guide
Cited by: 176
Author(s): Laurianne David, Amol Thakkar, Rocío Mercado, Ola Engkvist
Software Mentions: 2
Published: almost 6 years ago