pypi: PyMOL | Projects | Ecosyste.ms: Papers

10.1371/journal.pone.0053571

Plant Coilin: Structural Characteristics and RNA-Binding Properties
Cited by: 32
Author(s): В. Н. Макаров, Daria V. Rakitina, Anna D. Protopopova, И.В. Яминский, Alexander Arutiunian, Andrew J. Love, Michael Taliansky, Н. В. Калинина
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0022367

Prediction of Inhibitory Activity of Epidermal Growth Factor Receptor Inhibitors Using Grid Search-Projection Pursuit Regression Method
Cited by: 16
Author(s): Hongying Du, Zhide Hu, Andrea Bazzoli, Yang Zhang
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pone.0087485

Activation of a Chimeric Rpb5/RpoH Subunit Using Library Selection
Cited by: 4
Author(s): Bettina Sommer, Ingrid Waege, David Pöllmann, Tobias Seitz, Michael Thomm, Reinhard Sterner, Winfried Hausner
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0049788

Solution Structures, Dynamics, and Ice Growth Inhibitory Activity of Peptide Fragments Derived from an Antarctic Yeast Protein
Cited by: 20
Author(s): Syed hussinien Hielmie Shah, Rup Kumar Kar, Azren Aida Asmawi, Mohd Basyaruddin Abdul Rahman, Abdul Munir Abd. Murad, Nor Muhammad Mahadi, Mahiran Basri, Raja Noor Zaliha Abdul Rahman, Abu Bakar Salleh, Subhrangsu Chatterjee, Bimo Ario Tejo, Anirban Bhunia
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0059806

cDNA Cloning and Molecular Modeling of Procerain B, a Novel Cysteine Endopeptidase Isolated from Calotropis procera
Cited by: 16
Author(s): Abhay Narayan Singh, Prity Yadav, Vikash Kumar Dubey
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0095200

Control of Established Colon Cancer Xenografts Using a Novel Humanized Single Chain Antibody-Streptococcal Superantigen Fusion Protein Targeting the 5T4 Oncofetal Antigen
Cited by: 8
Author(s): Kelcey Patterson, Jennifer L. Dixon Pittaro, Peter S. Bastedo, David A. Hess, S. M. Mansour Haeryfar, John K. McCormick
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pone.0137008

New Insights into the Phylogeny and Gene Context Analysis of Binder of Sperm Proteins (BSPs)
Cited by: 7
Author(s): Edith Serrano, Ana Belén Olivares Martínez, Diana Arruga, Rosaura Pérez‐Pé, Álvaro Sánchez‐Ferrer, T. Muiño‐Blanco, J. A. Cebrián‐Pérez
Software Mentions: 1
Published: almost 11 years ago

10.1371/journal.pone.0072902

Crystal Structure and Substrate Specificity of D-Galactose-6-Phosphate Isomerase Complexed with Substrates
Cited by: 5
Author(s): Wi Hoon Jung, Raushan Kumar Singh, Jung-Kul Lee, Cheol‐Ho Pan
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0017068

The Conformational Stability and Biophysical Properties of the Eukaryotic Thioredoxins of Pisum Sativum Are Not Family-Conserved
Cited by: 6
Author(s): David Aguado-Llera, Ana Isabel Martínez-Gómez, Jesús Prieto, Marco Marenchino, José Á. Traverso, Javier Gómez, Ana Chueca, José L. Neira
Software Mentions: 1
Published: over 15 years ago

10.1371/journal.pone.0153528

Mps1 (Monopolar Spindle 1) Protein Inhibition Affects Cellular Growth and Pro-Embryogenic Masses Morphology in Embryogenic Cultures of Araucaria angustifolia (Araucariaceae)
Cited by: 4
Author(s): Jackellinne Caetano Douétts-Peres, Marco Antônio Lopes Cruz, Robert L. Reis, Angelo Schuabb Heringer, Eduardo Alves Gamosa de Oliveira, Paula Elbl, Eny Iochevet Segal Floh, Vanildo Silveira, Claudete Santa–Catarina
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0020506

Crystal Structure of a Novel Esterase Rv0045c from Mycobacterium tuberculosis
Cited by: 20
Author(s): Xiangdong Zheng, Jiubiao Guo, Li Xu, Honglei Li, Dongwei Zhang, Kai Zhang, Fei Sun, Tingyi Wen, Siguo Liu, Hai Pang
Software Mentions: 1
Published: about 15 years ago

10.1371/journal.pone.0068647

Structural Basis of the Novel S. pneumoniae Virulence Factor, GHIP, a Glycosyl Hydrolase 25 Participating in Host-Cell Invasion
Cited by: 12
Author(s): Siqiang Niu, Miao Luo, Jian Tang, Hua Zhou, Yanli Zhang, Xun Min, Xue-Fei Cai, Wenlu Zhang, Wenchu Xu, Defeng Li, Jingjin Ding, Yuming Hu, Dacheng Wang, Aiping Huang, Yin Yibin, Deqiang Wang
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0052424

Crystal Structure of an EAL Domain in Complex with Reaction Product 5′-pGpG
Cited by: 17
Author(s): Julien Robert-Paganin, Sylvie Nonin‐Lecomte, S. Réty
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0211093

Expanding the watch list for potential Ebola virus antibody escape mutations
Cited by: 24
Author(s): Jagdish Suresh Patel, Caleb J. Quates, Erin L. Johnson, F. Marty Ytreberg
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0079530

β-Lactoglobulin's Conformational Requirements for Ligand Binding at the Calyx and the Dimer Interphase: a Flexible Docking Study
Cited by: 27
Author(s): Lenin Domínguez-Ramírez, Elizabeth Del Moral-Ramírez, Paulina Cortés-Hernández, Mariano Garcı́a-Garibay, Judith Jiménez‐Guzmán
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0084491

Phage Display of the Serpin Alpha-1 Proteinase Inhibitor Randomized at Consecutive Residues in the Reactive Centre Loop and Biopanned with or without Thrombin
Cited by: 14
Author(s): Benjamin M. T. Scott, Wadim L. Matochko, Richard F. Gierczak, Varsha Bhakta, Ratmir Derda, William P. Sheffield
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0181139

Small-molecule inhibition of pyruvate phosphate dikinase targeting the nucleotide binding site
Cited by: 8
Author(s): Alexander Minges, Georg Groth
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0118225

Conformational Changes in a Hyperthermostable Glycoside Hydrolase: Enzymatic Activity Is a Consequence of the Loop Dynamics and Protonation Balance
Cited by: 9
Author(s): Leandro C. Oliveira, Viviam M. da Silva, Francieli Colussi, Aline Diniz Cabral, Mário de Oliveira Neto, Fábio M. Squina, Wanius García
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0254232

Anchoring the T6SS to the cell wall: Crystal structure of the peptidoglycan binding domain of the TagL accessory protein
Cited by: 4
Author(s): Van Son Nguyen, S. Spinelli, Éric Cascales, Alain Roussel, Christian Cambillau, Philippe Leone
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pone.0206279

Deuterium isotope effects in drug pharmacokinetics II: Substrate-dependence of the reaction mechanism influences outcome for cytochrome P450 cleared drugs
Cited by: 18
Author(s): Hao Sun, David W. Piotrowski, Suvi T. M. Orr, Joseph S. Warmus, Angela Wolford, Steven B. Coffey, Kentaro Futatsugi, Yinsheng Zhang, Alfin D. N. Vaz
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0235341

Larger active site in an ancestral hydroxynitrile lyase increases catalytically promiscuous esterase activity
Cited by: 12
Author(s): Bonnie Jones, Robert Evans, Nathan J. Mylrea, Debayan Chaudhury, Christine Luo, Bo Guan, Colin T. Pierce, Wendy J. Gordon, Carrie M. Wilmot, Romas J. Kazlauskas
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pone.0213394

Synthetic libraries of shark vNAR domains with different cysteine numbers within the CDR3
Cited by: 20
Author(s): Olivia Cabanillas-Bernal, Salvador Dueñas, Marta Ayala-Ávila, Alexandra Rucavado, Teresa Escalante, Alexei F. Licea-Navarro
Software Mentions: 1
Published: about 7 years ago

10.1371/journal.pone.0135413

New Insights into the Role of T3 Loop in Determining Catalytic Efficiency of GH28 Endo-Polygalacturonases
Cited by: 19
Author(s): Tao Tu, Kun Meng, Huiying Luo, Ossi Turunen, Lujia Zhang, Yanli Cheng, Xiaoyun Su, Rui Ma, Pengjun Shi, Yaru Wang, Peilong Yang, Bin Yao
Software Mentions: 1
Published: almost 11 years ago

10.1371/journal.pone.0097198

Solution Structure of the 2A Protease from a Common Cold Agent, Human Rhinovirus C2, Strain W12
Cited by: 7
Author(s): Woonghee Lee, Kelly Watters, Andrew T. Troupis, Nichole M. Reinen, Fabian P. Suchy, Kylie L. Moyer, Ronnie O. Frederick, Marco Tonelli, David J. Aceti, Ann C. Palmenberg, John L. Markley
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pone.0015072

Identification, Activity and Disulfide Connectivity of C-di-GMP Regulating Proteins in Mycobacterium tuberculosis
Cited by: 43
Author(s): Kajal Gupta, Prasun Kumar, Dipankar Chatterji
Software Mentions: 1
Published: over 15 years ago

10.1371/journal.pone.0164426

Jump into a New Fold—A Homology Based Model for the ABCG2/BCRP Multidrug Transporter
Cited by: 43
Author(s): Laura László, Balázs Sarkadi, Tamás Hegedűs
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0201668

Structural and biological features of a novel plant defensin from Brugmansia x candida
Cited by: 13
Author(s): Siriporn Kaewklom, Mathira Wongchai, Sawang Petvises, Warunee Hanpithakphong, Ratchaneewan Aunpad
Software Mentions: 1
Published: almost 8 years ago

10.1371/journal.pone.0133584

Preferential Interactions and the Effect of Protein PEGylation
Cited by: 10
Author(s): Louise Stenstrup Holm, Peter W. Thulstrup, Marina R. Kasimova, Marco van de Weert
Software Mentions: 1
Published: almost 11 years ago

10.1371/journal.pone.0101392

FBXO7 Y52C Polymorphism as a Potential Protective Factor in Parkinson's Disease
Cited by: 9
Author(s): Chiung Mei Chen, I. G. Chen, Yi Huang, Hsueh‐Fen Juan, Ying Lin Chen, Yi Chun Chen, Chin‐Feng Lin, Li Ching Lee, Chi Mei Lee, Guey Jen Lee-Chen, Yun Ju Lai, Yih Ru Wu
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pone.0083421

Substantial Conformational Change Mediated by Charge-Triad Residues of the Death Effector Domain in Protein-Protein Interactions
Cited by: 7
Author(s): Edward C. Twomey, Dana F. Cordasco, Stephen D. Kozuch, Yufeng Wei
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0014120

Homodimerization of the Death-Associated Protein Kinase Catalytic Domain: Development of a New Small Molecule Fluorescent Reporter
Cited by: 12
Author(s): Michael Zimmermann, Cédric Atmanène, Qingyan Xu, Laëtitia Fouillen, Alain Van Dorsselaer, Dominique Bron, Claire Marsol, Marcel Hibert, Sarah Cianférani, Claire Pigault, L.K. McNamara, D. Martin Watterson, Jacques Haiech, Marie‐Claude Kilhoffer
Software Mentions: 1
Published: over 15 years ago

10.1371/journal.pone.0010169

Molecular Basis of eRF3 Recognition by the MLLE Domain of Poly(A)-Binding Protein
Cited by: 47
Author(s): Guennadi Kozlov, Kalle Gehring
Software Mentions: 1
Published: about 16 years ago

10.1371/journal.pone.0040486

Hemoglobin Interactions with αB Crystallin: A Direct Test of Sensitivity to Protein Instability
Cited by: 6
Author(s): Tyler J. W. Clark, Scott A. Houck, John I. Clark
Software Mentions: 1
Published: almost 14 years ago

10.1371/journal.pone.0194830

An immuno-assay to quantify influenza virus hemagglutinin with correctly folded stalk domains in vaccine preparations
Cited by: 27
Author(s): Madhusudan Rajendran, Weina Sun, Phillip Comella, Raffael Nachbagauer, Teddy John Wohlbold, Fatima Amanat, Ericka Kirkpatrick, Peter Palese, Florian Krammer
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0145708

Roles of Asp179 and Glu270 in ADP-Ribosylation of Actin by Clostridium perfringens Iota Toxin
Cited by: 14
Author(s): Alexander Belyy, Irina Tabakova, Alexander E. Lang, Thomas Jank, Yury Belyi, Klaus Aktories
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0163920

Characterization of Two Monoclonal Antibodies That Recognize Linker Region and Carboxyl Terminal Domain of Coronavirus Nucleocapsid Protein
Cited by: 4
Author(s): Xin Zhang, Xin Zhao, Hui Dong, Yali Zhu, Hongyan Shi, Jianfei Chen, Shi Da, Li Feng
Software Mentions: 1
Published: almost 10 years ago

10.1371/journal.pone.0076675

Role of Key Salt Bridges in Thermostability of G. thermodenitrificans EstGtA2: Distinctive Patterns within the New Bacterial Lipolytic Enzyme Family XV
Cited by: 41
Author(s): David M. Charbonneau, Marc Beauregard
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0005836

Evolutionary Pressure on Mitochondrial Cytochrome b Is Consistent with a Role of CytbI7T Affecting Longevity during Caloric Restriction
Cited by: 40
Author(s): Wesley A. Beckstead, Mark T. W. Ebbert, Mark J. Rowe, David A. McClellan
Software Mentions: 1
Published: about 17 years ago

10.1371/journal.pone.0060887

Structural Plasticity in Human Heterochromatin Protein 1β
Cited by: 24
Author(s): Francesca Munari, Nasrollah Rezaei‐Ghaleh, ShengQi Xiang, Wolfgang Fischle, Markus Zweckstetter
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0083328

Two Residues in the Basic Region of the Yeast Transcription Factor Yap8 Are Crucial for Its DNA-Binding Specificity
Cited by: 10
Author(s): Catarina Amaral, Catarina Pimentel, Rute G. Matos, Cecília M. Arraiano, Manolis Matzapetakis, Claudina Rodrigues-Pousada
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0227411

The gene encoding the ketogenic enzyme HMGCS2 displays a unique expression during gonad development in mice
Cited by: 10
Author(s): Stefan Bagheri‐Fam, Huijun Chen, Sean B. Wilson, Katie Ayers, James Hughes, Frédérique Sloan‐Béna, Pierre Calvel, Gorjana Robevska, Beatriz Puisac, Kamila Kusz-Zamelczyk, Stefania Gimelli, Anna Spik, Jadwiga Jaruzelska, A Warenik-Szymankiewicz, Sultana Mh Faradz, Serge Nef, Juan Pié, Paul Q. Thomas, Andrew H. Sinclair, Dagmar Wilhelm
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0070600

A Novel Color Change Mechanism for Breast Cancer Biomarker Detection: Naphthoquinones as Specific Ligands of Human Arylamine N-Acetyltransferase 1
Cited by: 14
Author(s): Nicola Laurieri, James E. Egleton, Amy Varney, Cyrille C. Thinnes, Camilo Quevedo, Peter Seden, Sam Thompson, Fernando Rodrigues‐Lima, Julien Dairou, Jean‐Marie Dupret, Angela J. Russell, Edith Sim
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0214969

Drug-induced activation of integrin alpha IIb beta 3 leads to minor localized structural changes
Cited by: 7
Author(s): Una Janke, Martin Kulke, Ina Buchholz, Norman Geist, Walter Langel, Mihaela Delcea
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0100015

Interferon-Induced Genes of the Expanded IFIT Family Show Conserved Antiviral Activities in Non-Mammalian Species
Cited by: 41
Author(s): Mónica Varela, Patricia Díaz‐Rosales, Patricia Pereiro, Gabriel Forn-Cuní, María M. Costa, S. Dios, Alejandro Romero, António Figueras, Beatriz Novoa
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pone.0145349

Engineering of Immunoglobulin Fc Heterodimers Using Yeast Surface-Displayed Combinatorial Fc Library Screening
Cited by: 16
Author(s): Hyun-Woo Choi, Ye-Jin Kim, Dong-Jin Choi, Yong‐Sung Kim
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0140753

The Mycoplasma hyorhinis p37 Protein Rapidly Induces Genes in Fibroblasts Associated with Inflammation and Cancer
Cited by: 14
Author(s): Amber Cathie Gomersall, Huy Anh Phan, Sylvana Iacuone, Song Feng Li, Roger W. Parish
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0120268

A Unique HMG-Box Domain of Mouse Maelstrom Binds Structured RNA but Not Double Stranded DNA
Cited by: 15
Author(s): Pavol Genzor, Alex Bortvin
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0132834

Structural Insight into and Mutational Analysis of Family 11 Xylanases: Implications for Mechanisms of Higher pH Catalytic Adaptation
Cited by: 21
Author(s): Wenqin Bai, Cheng Zhou, Yang Zhao, Qinhong Wang, Yanhe Ma
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pone.0079363

Familial Hypertrophic Cardiomyopathy Related Cardiac Troponin C L29Q Mutation Alters Length-Dependent Activation and Functional Effects of Phosphomimetic Troponin I*
Cited by: 28
Author(s): Alison Y. Li, Charles M. Stevens, Binhua Liang, Kaveh Rayani, Sean C. Little, Jonathan P. Davis, Glen F. Tibbits
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0076219

Structural Insights into Neutrophilic Migration Revealed by the Crystal Structure of the Chemokine Receptor CXCR2 in Complex with the First PDZ Domain of NHERF1
Cited by: 19
Author(s): Guorong Lu, Yubao Wu, Yuanyuan Jiang, Shuo Wang, Yuning Hou, Xiaoqing Guan, J.S. Brunzelle, Nualpun Sirinupong, Sheng Shen, Chunying Li, Zhe Yang
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0109016

Divalent Metal Ion-Induced Folding Mechanism of RNase H1 from Extreme Halophilic Archaeon Halobacterium sp. NRC-1
Cited by: 4
Author(s): Elias Tannous, Shigenori Kanaya
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pone.0025981

Proteasomal Degradation of p53 by Human Papillomavirus E6 Oncoprotein Relies on the Structural Integrity of p53 Core Domain
Cited by: 38
Author(s): Xavier Bernard, Philip A. Robinson, Yves Nominé, Murielle Masson, Sébastian Charbonnier, Juan Ramon Ramirez-Ramos, François Deryckère, Gilles Travé, Georges Orfanoudakis
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0099013

Structure-Function Relationship of SW-AT-1, a Serpin-Type Protease Inhibitor in Silkworm
Cited by: 2
Author(s): Cheng Liu, Yue Han, Xi Chen, Wei Zhang
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pone.0105926

Evidence for Functional Diversity between the Voltage-Gated Proton Channel Hv1 and Its Closest Related Protein HVRP1
Cited by: 13
Author(s): Iris H. Kim, Peter Hevezi, Csaba Varga, Madhu A. Pathak, Hong Luan, Dennis T. Ta, Chau T. Tran, Albert Zlotnik, Iván Soltész, Francesco Tombola
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pone.0000301

Breakage-Reunion Domain of Streptococcus pneumoniae Topoisomerase IV: Crystal Structure of a Gram-Positive Quinolone Target
Cited by: 29
Author(s): Ivan Laponogov, D. A. Veselkov, Maninder K. Sohi, Xiao-Su Pan, Aniruddha Achari, Cheng Yang, Joseph D. Ferrara, L. Mark Fisher, Mark Sanderson
Software Mentions: 1
Published: over 19 years ago

10.1371/journal.pone.0093400

The BRCA1 Variant p.Ser36Tyr Abrogates BRCA1 Protein Function and Potentially Confers a Moderate Risk of Breast Cancer
Cited by: 3
Author(s): Charita M. Christou, Andreas Hadjisavvas, Maria Kyratzi, Christina Flouri, Ioanna Neophytou, Violetta Anastasiadou, Maria A. Loizidou, Kyriacos Kyriacou
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0043527

An Effective Strategy for a Whole-Cell Biosensor Based on Putative Effector Interaction Site of the Regulatory DmpR Protein
Cited by: 31
Author(s): Saurabh Gupta, Mritunjay Saxena, Neeru Saini, Mahmooduzzafar, Ram Kumar, Anil Kumar
Software Mentions: 1
Published: almost 14 years ago

10.1371/journal.pone.0064326

Signal Transduction Pathways in the Pentameric Ligand-Gated Ion Channels
Cited by: 22
Author(s): David D. Mowrey, Qiang Chen, Yu-He Liang, Jie Liang, Yan Xu, Pei Tang
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0077717

Crystal Structure of a Four-Layer Aggregate of Engineered TMV CP Implies the Importance of Terminal Residues for Oligomer Assembly
Cited by: 26
Author(s): Xiangyang Li, Baoan Song, Xi Chen, Zhenchao Wang, Mengjiao Zeng, Dan Yu, Deyu Hu, Zhuo Chen, Linhong Jin, Song Yang, Cai‐Guang Yang, Baoen Chen
Software Mentions: 1
Published: over 12 years ago

10.1371/journal.pone.0099788

Differential Neutralizing Activities of a Single Domain Camelid Antibody (VHH) Specific for Ricin Toxin’s Binding Subunit (RTB)
Cited by: 13
Author(s): Cristina Herrera, David J. Vance, Leslie E. Eisele, Charles B. Shoemaker, Nicholas J. Mantis
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pone.0191621

Identification and analysis of OsttaDSP, a phosphoglucan phosphatase from Ostreococcus tauri
Cited by: 5
Author(s): Julieta B. Carrillo, Diego F. Gómez-Casati, Mariana Martín, María V. Busi
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0020033

Molecular Design, Functional Characterization and Structural Basis of a Protein Inhibitor Against the HIV-1 Pathogenicity Factor Nef
Cited by: 32
Author(s): Sebastian Breuer, Simone I. Schievink, Antje Schulte, Wulf Blankenfeldt, Oliver T. Fackler, Matthias Geyer
Software Mentions: 1
Published: about 15 years ago

10.1371/journal.pone.0097062

A DNA Sequence Recognition Loop on APOBEC3A Controls Substrate Specificity
Cited by: 41
Author(s): Eric C. Logue, Nicolin Bloch, Erica Dhuey, Ruonan Zhang, Ping Cao, Cécile Hérate, Lise Chauveau, Stevan R. Hubbard, Nathaniel R. Landau
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pone.0035030

The Threonine Protease Activity of Testes-Specific Protease 50 (TSP50) Is Essential for Its Function in Cell Proliferation
Cited by: 21
Author(s): Yuyin Li, Yongli Bao, Zhenbo Song, Luguo Sun, Ping Wu, Yu Zhang, Cong Fan, Yanxin Huang, Yin Wu, Chunlei Yu, Yu Sun, Lihua Zheng, Guan‐Nan Wang, Yuxin Li
Software Mentions: 1
Published: about 14 years ago

10.1371/journal.pone.0190658

Computational study of HIV gp120 as a target for polyanionic entry inhibitors: Exploiting the V3 loop region
Cited by: 8
Author(s): Louis Hollingsworth, Anne M. Brown, Richard D. Gandour, David R. Bevan
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0148108

Oxidation of Phe454 in the Gating Segment Inactivates Trametes multicolor Pyranose Oxidase during Substrate Turnover
Cited by: 6
Author(s): Petr Halada, Dagmar Brugger, Jindřich Volc, Clemens K. Peterbauer, Christian Leitner, Dietmar Haltrich
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0026431

Bioinformatic Analysis of Pathogenic Missense Mutations of Activin Receptor Like Kinase 1 Ectodomain
Cited by: 13
Author(s): Claudia Scotti, Carla Olivieri, Laura Boeri, Cecilia Canzonieri, Federica Ornati, Elisabetta Buscarini, Fabio Pagella, Cesare Danesino
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0066458

Biochemical Characterization of UDP-N-acetylmuramoyl-L-alanyl-D-glutamate: meso-2,6-diaminopimelate ligase (MurE) from Verrucomicrobium spinosum DSM 4136T
Cited by: 9
Author(s): Sean E. McGroty, Dhivya T. Pattaniyil, Delphine Patin, Didier Blanot, Arvind Ravichandran, Hisao Suzuki, Renwick C. J. Dobson, Michael A. Savka, André O. Hudson
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0001443

A Mitochondrial Kinase Complex Is Essential to Mediate an ERK1/2-Dependent Phosphorylation of a Key Regulatory Protein in Steroid Biosynthesis
Cited by: 105
Author(s): Cecilia Poderoso, Daniela P. Converso, Paula Maloberti, Alejandra Duarte, Isabel Neuman, Soledad Galli, Fabiana Cornejo Maciel, Cristina Paz, Marı́a Cecilia Carreras, Juan José Poderoso, Ernesto J. Podestá
Software Mentions: 1
Published: over 18 years ago

10.1371/journal.pone.0000982

Conservation, Variability and the Modeling of Active Protein Kinases
Cited by: 55
Author(s): James D.R. Knight, Bin Qian, David C. Baker, Rashmi Kothary
Software Mentions: 1
Published: almost 19 years ago

10.1371/journal.pone.0107509

A Ubiquitin Shuttle DC-UbP/UBTD2 Reconciles Protein Ubiquitination and Deubiquitination via Linking UbE1 and USP5 Enzymes
Cited by: 3
Author(s): Aimin Song, Hui Ye, Yong-Guang Gao, Chen Zhou, Yuhang Zhang, Hong Yu Hu
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pone.0155180

Exome Sequencing of a Pedigree Reveals S339L Mutation in the TLN2 Gene as a Cause of Fifth Finger Camptodactyly
Cited by: 9
Author(s): Hao Deng, Sheng Deng, Hongbo Xu, Hua Deng, Yulan Chen, Lamei Yuan, Xiong Deng, Shengbo Yang, Liping Guan, Jianguo Zhang, Hong Yuan, Yi Guo
Software Mentions: 1
Published: about 10 years ago

10.1371/journal.pone.0142313

Investigating the Roles of the C-Terminal Domain of Plasmodium falciparum GyrA
Cited by: 6
Author(s): Soshichiro Nagano, Eiko Seki, Ting‐Yu Lin, Mikako Shirouzu, Shigeyuki Yokoyama, Jonathan G. Heddle
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0056467

Amide Proton Solvent Protection in Amylin Fibrils Probed by Quenched Hydrogen Exchange NMR
Cited by: 32
Author(s): Andrei T. Alexandrescu
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0242109

Improved soluble expression and use of recombinant human renalase
Cited by: 6
Author(s): Clifford S. Morrison, Elena E. Paskaleva, Marvin A Rios, Thomas R Beusse, Elaina M Blair, Lucy Lin, James R Hu, Aidan H Gorby, David R. Dodds, William B. Armiger, Jonathan S. Dordick, Mattheos Koffas
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pone.0029514

A Novel, “Double-Clamp” Binding Mode for Human Heme Oxygenase-1 Inhibition
Cited by: 23
Author(s): Mona N. Rahman, Jason Z. Vlahakis, Dragic Vukomanovic, Wallace Lee, Walter A. Szarek, Kanji Nakatsu, Zongchao Jia
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0150288

Mycobacterium tuberculosis Peptidyl-Prolyl Isomerases Also Exhibit Chaperone like Activity In-Vitro and In-Vivo
Cited by: 26
Author(s): Saurabh Pandey, Ashish Sharma, Deeksha Tripathi, Ashutosh Kumar, Mohd Khubaib, Manish Bhuwan, Tapan K. Chaudhuri, Seyed E. Hasnain, Nasreen Z. Ehtesham
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0047028

Structural and Enzymatic characterization of the lactonase SisLac from Sulfolobus islandicus
Cited by: 68
Author(s): Julien Hiblot, Guillaume Gotthard, Éric Chabrière, Mikael Elias
Software Mentions: 1
Published: almost 14 years ago

10.1371/journal.pone.0138438

Androgen and Progesterone Receptors Are Targets for Bisphenol A (BPA), 4-Methyl-2,4-bis-(P-Hydroxyphenyl)Pent-1-Ene—A Potent Metabolite of BPA, and 4-Tert-Octylphenol: A Computational Insight
Cited by: 49
Author(s): Mohd Rehan, Ejaz Ahmad, Ishfaq Ahmad Sheikh, Adel M. Abuzenadah, Ghazi A. Damanhouri, Osama S. Bajouh, Samera F. AlBasri, Mansour M. Assiri, M.A. Beg
Software Mentions: 1
Published: almost 11 years ago

10.1371/journal.pone.0015873

Structure-Based Mutational Analysis of eIF4E in Relation to sbm1 Resistance to Pea Seed-Borne Mosaic Virus in Pea
Cited by: 45
Author(s): J. Ashby, Clare E. M. Stevenson, Gavin E. Jarvis, David M. Lawson, Andrew J. Maule
Software Mentions: 1
Published: over 15 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: about 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

Projects: pypi: PyMOL

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Papers Mentioning PyMOL 8,266