10.1371/journal.pone.0134056

N-Terminal Coiled-Coil Structure of ATPase Subunits of 26S Proteasome Is Crucial for Proteasome Function
Cited by: 8
Author(s): Tomonao Inobe, Reiko Genmei
Software Mentions: 1
Published: almost 11 years ago

10.1371/journal.pone.0006163

Discovery of a Novel Prolactin in Non-Mammalian Vertebrates: Evolutionary Perspectives and Its Involvement in Teleost Retina Development
Cited by: 45
Author(s): Xigui Huang, Michelle Hui, Yun Liu, Don Yuen, Yong Zhang, Wood Yee Chan, Haoran Lin, Shuk Han Cheng, Christopher H. K. Cheng
Software Mentions: 1
Published: almost 17 years ago

10.1371/journal.pone.0231542

Unveiling functional motions based on point mutations in biased signaling systems: A normal mode study on nerve growth factor bound to TrkA
Cited by: 5
Author(s): Pedro T. Resende-Lara, David Pérahia, Ana Lígia Scott, Antônio Sérgio Kimus Braz
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pone.0154056

New Cysteine-Rich Ice-Binding Protein Secreted from Antarctic Microalga, Chloromonas sp.
Cited by: 17
Author(s): Woo‐Sik Jung, Robert L. Campbell, Yunho Gwak, Jong Im Kim, Peter L. Davies, EonSeon Jin
Software Mentions: 1
Published: about 10 years ago

10.1371/journal.pone.0086083

Critical Amino Acids within the Human Immunodeficiency Virus Type 1 Envelope Glycoprotein V4 N- and C-Terminals Contribute to Virus Entry
Cited by: 12
Author(s): Yan Li, Dan Yang, Jiaye Wang, Yuan Yao, Weizhe Zhang, Lu-Jing Wang, De Cheng, Fengkun Yang, Fengmin Zhang, Min Zhuang, Hong Ling
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0033291

Characterization of a Novel Binding Protein for Fortilin/TCTP — Component of a Defense Mechanism against Viral Infection in Penaeus monodon
Cited by: 8
Author(s): Tanate Panrat, Patuma Sinthujaroen, Benjamas Nupan, Warapond Wanna, Martti T. Tammi, Amornrat Phongdara
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0100165

Insulin-Like Growth Factor 2 Silencing Restores Taxol Sensitivity in Drug Resistant Ovarian Cancer
Cited by: 33
Author(s): Jurriaan Brouwer‐Visser, Jiyeon Lee, Kelly Anne McCullagh, M. Cossio, Yanhua Wang, Gloria S. Huang
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pone.0146393

PLGA-Curcumin Attenuates Opioid-Induced Hyperalgesia and Inhibits Spinal CaMKIIα
Cited by: 16
Author(s): Xiaoyu Hu, Fang Huang, Magdalena Szymusiak, Xiaojing Tian, Ying Liu, Zaijie Jim Wang
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0156218

Crystal Structure of the FERM-SH2 Module of Human Jak2
Cited by: 30
Author(s): Randall McNally, A.V. Toms, Michael J. Eck
Software Mentions: 1
Published: about 10 years ago

10.1371/journal.pone.0135448

Structural Analysis of the Rubisco-Assembly Chaperone RbcX-II from Chlamydomonas reinhardtii
Cited by: 13
Author(s): A. Bracher, Thomas R. Hauser, Cuimin Liu, F. Ulrich Hartl, Manajit Hayer‐Hartl
Software Mentions: 1
Published: almost 11 years ago

10.1371/journal.pone.0007258

Masitinib (AB1010), a Potent and Selective Tyrosine Kinase Inhibitor Targeting KIT
Cited by: 329
Author(s): Patrice Dubreuil, Sébastien Létard, Marco A. Ciufolini, Laurent Gros, M. Humbert, Nathalie Castéran, Laurence Borge, Bérengère Hajem, Anne Lermet, Wolfgang Sippl, Edwige Voisset, Michel Arock, Christian Auclair, Phillip S. Leventhal, Colin D. Mansfield, Alain Moussy, Olivier Hermine
Software Mentions: 1
Published: almost 17 years ago

10.1371/journal.pone.0012029

Optimized Hydrophobic Interactions and Hydrogen Bonding at the Target-Ligand Interface Leads the Pathways of Drug-Designing
Cited by: 313
Author(s): R. R. Patil, S. Das, Ashley Stanley, Lumbani Yadav, Akulapalli Sudhakar, Ashok K. Varma
Software Mentions: 1
Published: almost 16 years ago

10.1371/journal.pone.0060602

Mapping Enzymatic Catalysis Using the Effective Fragment Molecular Orbital Method: Towards all ab initio Biochemistry
Cited by: 33
Author(s): Casper Steinmann, Dmitri G. Fedorov, Jan H. Jensen
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0179983

Generation of a rabbit single-chain fragment variable (scFv) antibody for specific detection of Bradyrhizobium sp. DOA9 in both free-living and bacteroid forms
Cited by: 8
Author(s): Nguyễn Xuân Vũ, Natcha Pruksametanan, Witsanu Srila, Watcharin Yuttavanichakul, Kamonluck Teamtisong, Neung Teaumroong, Nantakorn Boonkerd, Panlada Tittabutr, Montarop Yamabhai
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0109354

BioGPS Descriptors for Rational Engineering of Enzyme Promiscuity and Structure Based Bioinformatic Analysis
Cited by: 17
Author(s): Virgilio F. Ferrario, Lydia Siragusa, Cynthia Ebert, Massimo Baroni, Marco Foscato, Gabriele Cruciani, Lucia Gardossi
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0017055

Histidine Hydrogen-Deuterium Exchange Mass Spectrometry for Probing the Microenvironment of Histidine Residues in Dihydrofolate Reductase
Cited by: 28
Author(s): Masaru Miyagi, Qun Wan, Md. Faiz Ahmad, Giridharan Gokulrangan, Sara E. Tomechko, Brad C. Bennett, Chris Dealwis
Software Mentions: 1
Published: over 15 years ago

10.1371/journal.pone.0113294

Design and Development of a Novel Vaccine for Protection against Lyme Borreliosis
Cited by: 45
Author(s): Pär Comstedt, Markus Hanner, Wolfgang Schüler, Andreas Meinke, Urban Lundberg
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0018300

Biochemical and Structural Properties of Cyanases from Arabidopsis thaliana and Oryza sativa
Cited by: 27
Author(s): Dawei Qian, Lin Jiang, Lu Lu, Chunhong Wei, Li Yi
Software Mentions: 1
Published: over 15 years ago

10.1371/journal.pone.0043788

Atomistic Mechanism of MicroRNA Translation Upregulation via Molecular Dynamics Simulations
Cited by: 14
Author(s): Yaguang Wei, Fang Qin, Jian Zhang, Ray Luo, Haifeng Chen
Software Mentions: 1
Published: almost 14 years ago

10.1371/journal.pone.0075582

Putative Bioactive Motif of Tritrpticin Revealed by an Antibody with Biological Receptor-Like Properties
Cited by: 8
Author(s): Raghava Sharma, Suvendu Lomash, Dinakar M. Salunke
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0108946

Structural Insights into RNA Polymerase Recognition and Essential Function of Myxococcus xanthus CdnL
Cited by: 18
Author(s): Aránzazu Gallego-García, Yasmina Mirassou, Diana García‐Moreno, Montserrat Elı́as-Arnanz, María Ángeles Sánchez Jiménez, S. Padmanabhan
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pone.0241728

PharmaNet: Pharmaceutical discovery with deep recurrent neural networks
Cited by: 5
Author(s): Paola Ruiz Puentes, Natalia Valderrama, Cristina González, Laura Daza, Carolina Muñoz-Camargo, Juan C. Cruz, Pablo Arbeláez
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pone.0020872

Anchored Design of Protein-Protein Interfaces
Cited by: 59
Author(s): Steven M. Lewis, Brian Kuhlman
Software Mentions: 1
Published: about 15 years ago

10.1371/journal.pone.0119608

Glycans Flanking the Hypervariable Connecting Peptide between the A and B Strands of the V1/V2 Domain of HIV-1 gp120 Confer Resistance to Antibodies That Neutralize CRF01_AE Viruses
Cited by: 14
Author(s): Sara M. O’Rourke, Ruengpung Sutthent, Pham Phung, Kathryn A. Mesa, Normand L. Frigon, Briana To, Navin Horthongkham, Kay Limoli, Terri Wrin, Phillip W. Berman
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0223773

Engineering a single-chain antibody against Trypanosoma cruzi metacyclic trypomastigotes to block cell invasion
Cited by: 4
Author(s): Lara Maria Kalempa Demeu, Rodrigo Jahn Soares, Juliana Severo Miranda, Lisandro Pacheco-Lugo, Kelin Gonçalves de Oliveira, Cristian Andrés Cortez Plaza, Philippe Billiald, Juliana de Moura, Nobuko Yoshida, Larissa M. Alvarenga, Wanderson D. DaRocha
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0096536

The Tertiary Origin of the Allosteric Activation of E. coli Glucosamine-6-Phosphate Deaminase Studied by Sol-Gel Nanoencapsulation of Its T Conformer
Cited by: 4
Author(s): Sergio Zonszein, Laura I. Álvarez‐Añorve, Roberto J. Vázquez-Núñez, Mario L. Calcagno
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pone.0201922

Structures of NHBA elucidate a broadly conserved epitope identified by a vaccine induced antibody
Cited by: 5
Author(s): Martina Maritan, Daniele Veggi, Roberta Cozzi, Lucia Dello Iacono, Erika Bartolini, Paola Lo Surdo, Giulietta Maruggi, Glen Spraggon, Matthew J. Bottomley, E. Malito
Software Mentions: 1
Published: almost 8 years ago

10.1371/journal.pone.0024766

Modulation of Catalytic Activity in Multi-Domain Protein Tyrosine Phosphatases
Cited by: 12
Author(s): L.L. Madan, Shivamurthy Veeranna, Khader Shameer, Chilamakuri Chandra Sekhar Reddy, Ramanathan Sowdhamini, B. Gopal
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pone.0025118

Comparative Analysis of Species-Specific Ligand Recognition in Toll-Like Receptor 8 Signaling: A Hypothesis
Cited by: 47
Author(s): Rajiv Gandhi Govindaraj, Balachandran Manavalan, Shaherin Basith, Sangdun Choi
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pone.0082020

Conformational Polymorphism of m7GTP in Crystal Structure of the PB2 Middle Domain from Human Influenza A Virus
Cited by: 8
Author(s): Toshiharu Tsurumura, Hao Qiu, Toru Yoshida, Yayoi Tsumori, Dai Hatakeyama, Takashi Kuzuhara, Hideaki Tsuge
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0065045

Transient Oligomerization of the SARS-CoV N Protein – Implication for Virus Ribonucleoprotein Packaging
Cited by: 100
Author(s): Chung-ke Chang, Chia Min Michael Chen, Ming Hui Chiang, Yen Lan Hsu, Tai Huang Huang
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0043863

Crystal Structures of Archaemetzincin Reveal a Moldable Substrate-Binding Site
Cited by: 4
Author(s): Christine Graef, M. Schacherl, S. Waltersperger, Ulrich Baumann
Software Mentions: 1
Published: almost 14 years ago

10.1371/journal.pone.0025317

Obesity Risk Gene TMEM18 Encodes a Sequence-Specific DNA-Binding Protein
Cited by: 28
Author(s): Jaana Jurvansuu, Adrian Goldman
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pone.0009990

Detection and Architecture of Small Heat Shock Protein Monomers
Cited by: 76
Author(s): Pierre Poulain, Jean‐Christophe Gelly, Delphine Flatters
Software Mentions: 1
Published: about 16 years ago

10.1371/journal.pone.0173767

Streptococcus suis sortase A is Ca2+ independent and is inhibited by acteoside, isoquercitrin and baicalin
Cited by: 8
Author(s): Fuguang Chen, Fang Xie, Baoxue Yang, Yuming Wang, Siguo Liu, Yueling Zhang
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0237181

Comprehensive genome based analysis of Vibrio parahaemolyticus for identifying novel drug and vaccine molecules: Subtractive proteomics and vaccinomics approach
Cited by: 14
Author(s): Mahmudul Hasan, Kazi Faizul Azim, Abdus Shukur Imran, Ishtiak Malique Chowdhury, Shah Rucksana Akhter Urme, Sorwer Alam Parvez, Md. Bashir Uddin, Syed Sayeem Uddin Ahmed
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pone.0043437

Random Mutagenesis Reveals Residues of JAK2 Critical in Evading Inhibition by a Tyrosine Kinase Inhibitor
Cited by: 23
Author(s): Michael R. Marit, Manprit Chohan, Natasha Matthew, Kai Huang, D.A. Kuntz, David R. Rose, Dwayne L. Barber
Software Mentions: 1
Published: almost 14 years ago

10.1371/journal.pone.0052732

Prime-Boost Immunization of Rabbits with HIV-1 gp120 Elicits Potent Neutralization Activity against a Primary Viral Isolate
Cited by: 16
Author(s): Kristin Narayan, Nitish Agrawal, Sean X. Du, Janelle Muranaka, Katherine W. Bauer, Daniel P. Leaman, Pham Phung, Kay Limoli, Helen Chen, Rebecca I. Boenig, Terri Wrin, Michael B. Zwick, Robert G. Whalen
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0123567

Crystal Structure of Plasmodium knowlesi Apical Membrane Antigen 1 and Its Complex with an Invasion-Inhibitory Monoclonal Antibody
Cited by: 15
Author(s): B. Vulliez-Le Normand, Bart W. Faber, F.A. Saul, Marjolein van der Eijk, Alan W. Thomas, Balbir Singh, Clemens H. M. Kocken, G.A. Bentley
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pone.0089116

Structural Analysis of Viral Infectivity Factor of HIV Type 1 and Its Interaction with A3G, EloC and EloB
Cited by: 16
Author(s): Kauȇ Santana da Costa, Élcio Leal, Alberto Monteiro dos Santos, Anderson Henrique Lima e Lima, Cláudio Nahum Alves, Jerônimo Lameira
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0149903

Structure of the Response Regulator NsrR from Streptococcus agalactiae, Which Is Involved in Lantibiotic Resistance
Cited by: 12
Author(s): Sakshi Khosa, A. Hoeppner, Holger Gohlke, Lutz Schmitt, Sander H. J. Smits
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0100797

QSAR and Docking Studies on Capsazepine Derivatives for Immunomodulatory and Anti-Inflammatory Activity
Cited by: 30
Author(s): Aparna Shukla, Pooja Sharma, Om Prakash, Mohinder Singh, Komal Kalani, Feroz Khan, Dnyaneshwar Umrao Bawankule, Suaib Luqman, Santosh K. Srivastava
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pone.0223387

Structural mechanism for regulation of DNA binding of BpsR, a Bordetella regulator of biofilm formation, by 6-hydroxynicotinic acid
Cited by: 5
Author(s): William T. Booth, Ryan R. Davis, Rajendar Deora, Thomas Hollis
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0047665

The Metagenome-Derived Enzymes LipS and LipT Increase the Diversity of Known Lipases
Cited by: 73
Author(s): Jennifer Chow, Filip Kovačić, Yuliya Dall Antonia, Ulrich Krauß, Francesco Fersini, Christel Schmeisser, Benjamin Lauinger, Patrick Bongen, Jörg Pietruszka, Marlen Schmidt, Ina Menyes, Uwe T. Bornscheuer, Marrit Eckstein, Oliver Thum, Andreas Liese, Jochen Mueller‐Dieckmann, Karl‐Erich Jaeger, Wolfgang R. Streit
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0080393

Involvement of and Interaction between WNT10A and EDA Mutations in Tooth Agenesis Cases in the Chinese Population
Cited by: 48
Author(s): Huiying He, Dong Han, Hailan Feng, Hong Qu, Seng Song, Baojing Bai, Zhenting Zhang
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0040846

Prediction of Carbohydrate Binding Sites on Protein Surfaces with 3-Dimensional Probability Density Distributions of Interacting Atoms
Cited by: 25
Author(s): Keng‐Chang Tsai, Jhih-Wei Jian, Ei-Wen Yang, Po-Chiang Hsu, Hung-Pin Peng, Ching-Tai Chen, Jun‐Bo Chen, Jeng-Yih Chang, Wen-Lian Hsu, An-Suei Yang
Software Mentions: 1
Published: almost 14 years ago

10.1371/journal.pone.0033416

Crystal Structure of Diedel, a Marker of the Immune Response of Drosophila melanogaster
Cited by: 17
Author(s): Franck Coste, Cordula Kemp, Vanessa Bobezeau, Charles Hétru, Christine Kellenberger, Jean‐Luc Imler, Alain Roussel
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0055650

Characterization of the N-Terminal Domain of BteA: A Bordetella Type III Secreted Cytotoxic Effector
Cited by: 5
Author(s): Chen Guttman, Geula Davidov, Hadassa Shaked, Sofiya Kolusheva, Ronit Bitton, Atish Ganguly, Jeff F. Miller, Jordan H. Chill, Raz Zarivach
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0022253

Single-Molecule Fluorescence Polarization Study of Conformational Change in Archaeal Group II Chaperonin
Cited by: 7
Author(s): Ryo Iizuka, Taro Ueno, Nobuhiro Morone, Takashi Funatsu
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pone.0000685

Mutations in the UBIAD1 Gene, Encoding a Potential Prenyltransferase, Are Causal for Schnyder Crystalline Corneal Dystrophy
Cited by: 104
Author(s): Andrew Orr, Marie‐Pierre Dubé, Julien L. Marcadier, Haiyan Jiang, Antonio Federico, Stanley George, Christopher Seamone, David Q. Andrews, Paul Dubord, Simon Holland, Sylvie Provost, Vanessa Mongrain, Susan C. Evans, Brent Higgins, Sharen Bowman, Duane L. Guernsey, Mark E. Samuels
Software Mentions: 1
Published: almost 19 years ago

10.1371/journal.pone.0037645

Protein Sequence Alignment Analysis by Local Covariation: Coevolution Statistics Detect Benchmark Alignment Errors
Cited by: 19
Author(s): Russell J. Dickson, Gregory B. Gloor
Software Mentions: 1
Published: about 14 years ago

10.1371/journal.pone.0180241

Metal ion coordination in the E. coli Nudix hydrolase dihydroneopterin triphosphate pyrophosphatase: New clues into catalytic mechanism
Cited by: 4
Author(s): Shannon E. Hill, Elaine Nguyen, Chiamaka U. Ukachukwu, Dana M. Freeman, Stephen Quirk, Raquel L. Lieberman
Software Mentions: 1
Published: almost 9 years ago

10.1371/journal.pone.0162273

GNAI3: Another Candidate Gene to Screen in Persons with Ocular Albinism
Cited by: 3
Author(s): Alejandra Young, Uma Dandekar, Calvin Pan, Avery Sader, Jie Zheng, Richard A. Lewis, Débora B. Farber
Software Mentions: 1
Published: almost 10 years ago

10.1371/journal.pone.0031445

Protein-Protein Interactions in Clathrin Vesicular Assembly: Radial Distribution of Evolutionary Constraints in Interfaces
Cited by: 1
Author(s): Rupali A. Gadkari, Narayanaswamy Srinivasan
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0079544

New Antimalarial Hits from Dacryodes edulis (Burseraceae) - Part I: Isolation, In Vitro Activity, In Silico “drug-likeness” and Pharmacokinetic Profiles
Cited by: 27
Author(s): Denis Zofou, Esther Laure Tematio, Fidele Ntie‐Kang, Mathieu Téné, Moses N. Ngemenya, Pierre Tane, Vincent P. K. Titanji
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0112902

Identification of Functionally Important Residues of the Rat P2X4 Receptor by Alanine Scanning Mutagenesis of the Dorsal Fin and Left Flipper Domains
Cited by: 9
Author(s): Vendula Tvrdoňová, Milos B. Rokic, Stanko S. Stojilković, Hana Zemková
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0240920

A highly active heparinase I from Bacteroides cellulosilyticus: Cloning, high level expression, and molecular characterization
Cited by: 4
Author(s): Liwei Gao, Hongtao Zhu, Caiyun Liu, Zhixiang Lv, Xue‐Gong Fan, Ye-Wang Zhang
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0074636

Frequency and Pattern of Heteroplasmy in the Complete Human Mitochondrial Genome
Cited by: 71
Author(s): Ariel Delgado Ramos, Cristina Santos, Ligia Mateiu, María del Mar González, Luis Álvarez, Luı́sa Azevedo, António Amorim, María Pilar Aluja
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0072718

NMR Structure of Temporin-1 Ta in Lipopolysaccharide Micelles: Mechanistic Insight into Inactivation by Outer Membrane
Cited by: 30
Author(s): Rathi Saravanan, M. S. Joshi, Harini Mohanram, Anirban Bhunia, Maria Luisa Mangoni, Surajit Bhattacharjya
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0229077

Novel EGFR ectodomain mutations associated with ligand-independent activation and cetuximab resistance in head and neck cancer
Cited by: 12
Author(s): Sindhu Nair, Hoa Q. Trummell, Rajani Rajbhandari, Nanda K. Thudi, Susan E. Nozell, Jason M. Warram, Christopher D. Willey, Eddy S. Yang, William J. Placzek, James A. Bonner, Markus Bredel
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0087963

Structural Basis for Disparate Sugar-Binding Specificities in the Homologous Cargo Receptors ERGIC-53 and VIP36
Cited by: 30
Author(s): Tadashi Satoh, K. Suzuki, Takumi Yamaguchi, Koichi Kato
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0195558

Membrane permeabilizing amphiphilic peptide delivers recombinant transcription factor and CRISPR-Cas9/Cpf1 ribonucleoproteins in hard-to-modify cells
Cited by: 51
Author(s): Thomas Del’Guidice, Jean-Pascal Lepetit-Stoffaes, Louis-Jean Bordeleau, Jean Roberge, Vanessa Théberge, Coraline Lauvaux, Xavier Barbeau, Jessica Trottier, Vibhuti P. Davé, Denis‐Claude Roy, Bruno Gaillet, Alain Garnier, David R.P. Guay
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0123379

Structural Effects of Protein Aging: Terminal Marking by Deamidation in Human Triosephosphate Isomerase
Cited by: 18
Author(s): Ignacio De la Mora-De la Mora, Alfredo Torres‐Larios, Sergio Enríquez-Flores, Sara T. Méndez, Adriana Castillo-Villanueva, Saúl Gómez-Manzo, Gabriel López-Velázquez, Jaime Marcial-Quino, Angélica Torres-Arroyo, Itzhel García-Torres, Horacio Reyes‐Vivas, Jesús Oria-Hernández
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pone.0066542

Functional Characterization of the Cardiac Ryanodine Receptor Pore-Forming Region
Cited by: 7
Author(s): Joanne Euden, Sammy A. Mason, Alan J. Williams
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0023245

Structural Analysis of the Essential Resuscitation Promoting Factor YeaZ Suggests a Mechanism of Nucleotide Regulation through Dimer Reorganization
Cited by: 22
Author(s): Inci Aydin, Yumiko Saijo-Hamano, Keiichi Namba, Connor Thomas, Anna Roujeinikova
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pone.0069228

Disruption of Hydrogen Bonds between Major Histocompatibility Complex Class II and the Peptide N-Terminus Is Not Sufficient to Form a Human Leukocyte Antigen-DM Receptive State of Major Histocompatibility Complex Class II
Cited by: 12
Author(s): Monika-Sarah E. D. Schulze, Anne-Kathrin Anders, Dhruv Sethi, Melissa Call
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0038709

Mycobacterium tuberculosis DosR Regulon Gene Rv0079 Encodes a Putative, ‘Dormancy Associated Translation Inhibitor (DATIN)’
Cited by: 28
Author(s): Ashutosh Kumar, Mohammad Majid, Ralph Kunisch, Pittu Sandhya Rani, Insaf Ahmed Qureshi, Astrid Lewin, Seyed E. Hasnain, Niyaz Ahmed
Software Mentions: 1
Published: about 14 years ago

10.1371/journal.pone.0007295

Non-Hemagglutinating Flaviviruses: Molecular Mechanisms for the Emergence of New Strains via Adaptation to European Ticks
Cited by: 45
Author(s): М. А. Хаснатинов, Katarína Ustaníková, Т. В. Фролова, В В Погодина, Н. Г. Бочкова, Л С Левина, Mirko Slovák, Mária Kazimírová, М Лабуда, Boris Klempa, E Elecková, Ernest A. Gould, Т.С. Грицун
Software Mentions: 1
Published: almost 17 years ago

10.1371/journal.pone.0256572

Human norovirus GII.4 Hong Kong variant shares common ancestry with GII.4 Osaka and emerged in Thailand in 2016
Cited by: 1
Author(s): Watchaporn Chuchaona, Jira Chansaenroj, Jiratchaya Puenpa, Sarawut Khongwichit, Sumeth Korkong, Sompong Vongpunsawad, Yong Poovorawan
Software Mentions: 1
Published: almost 5 years ago

10.1371/journal.pone.0073782

Insights into the Cross-Immunity Mechanism within Effector Families of Bacteria Type VI Secretion System from the Structure of StTae4-EcTai4 Complex
Cited by: 11
Author(s): H. Zhang, Zengqiang Gao, Yong Wei, Jianhua Xu, Yuhui Dong
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0028778

In silico Analysis of Conformational Changes Induced by Mutation of Aromatic Binding Residues: Consequences for Drug Binding in the hERG K+ Channel
Cited by: 24
Author(s): Kirsten Knape, Tobias Linder, Peter Wolschann, Anton Beyer, Anna Stary-Weinzinger
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0048595

Functional and Structural Divergence of an Unusual LTR Retrotransposon Family in Plants
Cited by: 12
Author(s): Dongying Gao, José Carlos Jiménez-López, Akihisa Iwata, Navdeep Gill, Scott A. Jackson
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0192661

Ligand binding modulates the structural dynamics and activity of urokinase-type plasminogen activator: A possible mechanism of plasminogen activation
Cited by: 3
Author(s): Tobias Kromann-Hansen, E.L. Lange, Ida Katrine Lund, Gunilla Høyer‐Hansen, Peter A. Andreasen, Elizabeth A. Komives
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0025246

Using Shifts in Amino Acid Frequency and Substitution Rate to Identify Latent Structural Characters in Base-Excision Repair Enzymes
Cited by: 1
Author(s): Ramiro Barrantes-Reynolds, Susan S. Wallace, Jeffrey P. Bond
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pone.0048360

Structural Insight into the Clostridium difficile Ethanolamine Utilisation Microcompartment
Cited by: 51
Author(s): Alison C. Pitts, Laura Tuck, Alexandra Faulds-Pain, Richard J. Lewis, Jon Marles‐Wright
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0198010

Structural basis of L-glucose oxidation by scyllo-inositol dehydrogenase: Implications for a novel enzyme subfamily classification
Cited by: 9
Author(s): K. Fukano, K. Ozawa, Masaya Kokubu, Tetsu Shimizu, Shinsaku Ito, Yasuyuki Sasaki, Akira Nakamura, Seishi Yajima
Software Mentions: 1
Published: about 8 years ago

10.1371/journal.pone.0171328

Evidence for disulfide bonds in SR Protein Kinase 1 (SRPK1) that are required for activity and nuclear localization
Cited by: 18
Author(s): Maria Koutroumani, Γεώργιος Παπαδόπουλος, Metaxia Vlassi, Eleni Nikolakaki, Thomas Giannakouŕos
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0007838

Inhibition of Neuraminidase Inhibitor-Resistant Influenza Virus by DAS181, a Novel Sialidase Fusion Protein
Cited by: 65
Author(s): Gallen Triana‐Baltzer, Larisa V. Gubareva, Alexander Klimov, David F. Wurtman, Ronald B. Moss, Maria Hedlund, Jeffrey Larson, Robert B. Belshe, Fang Fang
Software Mentions: 1
Published: over 16 years ago

10.1371/journal.pone.0192826

Computer simulations reveal changes in the conformational space of the transcriptional regulator MosR upon the formation of a disulphide bond and in the collective motions that regulate its DNA-binding affinity
Cited by: 5
Author(s): Amanda Souza Câmara, E. Horjales
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0013105

Insight into Antigenic Diversity of VAR2CSA-DBL5ε Domain from Multiple Plasmodium falciparum Placental Isolates
Cited by: 18
Author(s): Sédami Gnidehou, Leon Eyrich Jessen, Stéphane Gangnard, Caroline Ermont, CHoukri Triqui, Mickäel Quiviger, Juliette Guitard, Ole Lund, Philippe Deloron, Nicaise Tuikue Ndam
Software Mentions: 1
Published: almost 16 years ago

10.1371/journal.pone.0014310

Co-Conserved Features Associated with cis Regulation of ErbB Tyrosine Kinases
Cited by: 14
Author(s): Asra Mirza, Morad Mustafa, Eric Talevich, Natarajan Kannan
Software Mentions: 1
Published: over 15 years ago

10.1371/journal.pone.0096975

Structural Insights into the Evolution of a Sexy Protein: Novel Topology and Restricted Backbone Flexibility in a Hypervariable Pheromone from the Red-Legged Salamander, Plethodon shermani
Cited by: 17
Author(s): Damien B. Wilburn, Kathleen E. Bowen, Kari A. Doty, Sengodagounder Arumugam, Andrew N. Lane, Pamela W. Feldhoff, Richard C. Feldhoff
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pone.0027989

Impact of Host Cell Line Adaptation on Quasispecies Composition and Glycosylation of Influenza A Virus Hemagglutinin
Cited by: 41
Author(s): Jana Roedig, Erdmann Rapp, Dirk W. Höper, Yvonne Genzel, Udo Reichl
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0196918

Structural insights on the efficient catalysis of hydroperoxide reduction by Ohr: Crystallographic and molecular dynamics approaches
Cited by: 8
Author(s): Erika Piccirillo, Thiago Gerônimo Pires Alegria, Karen Fulan Discola, Jose A. R. R. Cussiol, Renato Mateus Domingos, Marcos Aurélio Farias de Oliveira, Leandro de Rezende, Luís Eduardo Soares Netto, Antonia T-do Amaral
Software Mentions: 1
Published: about 8 years ago

10.1371/journal.pone.0132956

Folded or Not? Tracking Bet v 1 Conformation in Recombinant Allergen Preparations
Cited by: 5
Author(s): Felix Husslik, Kay-Martin Hanschmann, Ariane Krämer, Christian Seutter von Loetzen, Kristian Schweimer, Iris Bellinghausen, Regina Treudler, Jan C. Simon, Lothar Vogel, Elke Völker, Stefanie Randow, Andreas Reuter, Paul Rösch, Stefan Vieths, Thomas Holzhauser, Dirk Schiller
Software Mentions: 1
Published: almost 11 years ago

10.1371/journal.pone.0066913

Identification of Residues Involved in Substrate Specificity and Cytotoxicity of Two Closely Related Cutinases from Mycobacterium tuberculosis
Cited by: 15
Author(s): Luc Dedieu, Carole Serveau-Avesque, Stéphane Canaan
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0058297

The N-terminal Helix Controls the Transition between the Soluble and Amyloid States of an FF Domain
Cited by: 16
Author(s): Virginia Leyva Castillo, Fabrizio Chiti, Salvador Ventura
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0062697

Crystal Structure of Human TWEAK in Complex with the Fab Fragment of a Neutralizing Antibody Reveals Insights into Receptor Binding
Cited by: 18
Author(s): Alfred Lammens, Monika Baehner, Ulrich Kohnert, Jens Niewoehner, Leopold von Proff, Michael Schraeml, Katja Lammens, Karl‐Peter Hopfner
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0021640

Crystal Structures of Histone and p53 Methyltransferase SmyD2 Reveal a Conformational Flexibility of the Autoinhibitory C-Terminal Domain
Cited by: 41
Author(s): Yuanyuan Jiang, Nualpun Sirinupong, J.S. Brunzelle, Zhe Yang
Software Mentions: 1
Published: about 15 years ago

10.1371/journal.pone.0160345

Generation and Characterization of an IgG4 Monomeric Fc Platform
Cited by: 14
Author(s): Lu Shan, Magali Colazet, Kim Rosenthal, Xiang-Qing Yu, Jared S. Bee, Andrew D. Ferguson, Melissa Damschroder, Herren Wu, William F. Dall’Acqua, Ping Tsui, Vaheh Oganesyan
Software Mentions: 1
Published: almost 10 years ago

10.1371/journal.pone.0109521

Identification of a Novel Nucleocytoplasmic Shuttling RNA Helicase of Trypanosomes
Cited by: 14
Author(s): Alexandre Haruo Inoue, Mariana Serpeloni, Priscila Mazzocchi Hiraiwa, Sueli Fumie Yamada‐Ogatta, J.R.C. Muniz, María Cristina M. Motta, Newton Medeiros Vidal, Samuel Goldenberg, Andréa Rodrigues Ávila
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0187778

Substrate specificity of human metallocarboxypeptidase D: Comparison of the two active carboxypeptidase domains
Cited by: 6
Author(s): Javier García-Pardo, Sebastián Tanco, Lucía Díaz, Sayani Dasgupta, Juan Fernández‐Recio, Júlia Lorenzo, Francesc X. Aviles, Lloyd D. Fricker
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0066211

An Experimental and Computational Evolution-Based Method to Study a Mode of Co-evolution of Overlapping Open Reading Frames in the AAV2 Viral Genome
Cited by: 14
Author(s): Yasuhiro Kawano, Shane Neeley, Kei Adachi, Hiroyuki Nakai
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0043761

Structure of a Novel Winged-Helix Like Domain from Human NFRKB Protein
Cited by: 6
Author(s): Abhinav Kumar, Sabine Möcklinghoff, Fumiaki Yumoto, Lukasz Jaroszewski, Carol L. Farr, Anna Grzechnik, Phuong Nguyen, Christian X. Weichenberger, Hsiu‐Ju Chiu, Heath E. Klock, Marc‐André Elsliger, Ashley M. Deacon, Adam Godzik, Scott A. Lesley, Bruce R. Conklin, Robert J. Fletterick, Ian A. Wilson
Software Mentions: 1
Published: almost 14 years ago

10.1371/journal.pone.0149638

Immunisation With Immunodominant Linear B Cell Epitopes Vaccine of Manganese Transport Protein C Confers Protection against Staphylococcus aureus Infection
Cited by: 18
Author(s): Hui-Jie Yang, Jinyong Zhang, Chao Wei, Liuyang Yang, Qiang Zuo, Yuan Zhuang, Youjun Feng, Swaminath Srinivas, Hao Zeng, Quanming Zou
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0161585

A Family of CSαβ Defensins and Defensin-Like Peptides from the Migratory Locust, Locusta migratoria, and Their Expression Dynamics during Mycosis and Nosemosis
Cited by: 17
Author(s): Mingyue Lv, Amr A. Mohamed, Liwei Zhang, Pengfei Zhang, Long Zhang
Software Mentions: 1
Published: almost 10 years ago

10.1371/journal.pone.0168944

Inhibition of Helicobacter pylori and Its Associated Urease by Palmatine: Investigation on the Potential Mechanism
Cited by: 49
Author(s): Jiangtao Zhou, Cai-Lan Li, Lihua Tan, Yifei Xu, Yuhong Liu, Zhi-Zhun Mo, Yao-Xing Dou, Rui Su, Zi‐Ren Su, Ping Huang, Jianhui Xie
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0080200

The ATP-Mediated Regulation of KaiB-KaiC Interaction in the Cyanobacterial Circadian Clock
Cited by: 39
Author(s): Risa Mutoh, Atsuhito Nishimura, So Yasui, Kiyoshi Onai, Masahiro Ishiura
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0168832

Structural and Catalytic Properties of S1 Nuclease from Aspergillus oryzae Responsible for Substrate Recognition, Cleavage, Non–Specificity, and Inhibition
Cited by: 15
Author(s): T. Kovaľ, Lars Østergaard, Jan Lehmbeck, Allan Nørgaard, Petra Lipovová, Jarmila Dušková, Tereza Skálová, Mária Trundová, Petr Kolenko, Karla Fejfarová, Jan Stránský, Leona Švecová, Jindřich Hašek, Jan Dohnálek
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0077054

Differences in the Binding Affinities of ErbB Family: Heterogeneity in the Prediction of Resistance Mutants
Cited by: 8
Author(s): Mariana Buongermino Pereira, Chandra Verma, Gloria Fuentes
Software Mentions: 1
Published: over 12 years ago