pypi: PyMOL | Projects | Ecosyste.ms: Papers

10.1371/journal.pone.0166935

Multivalent Interactions of Human Primary Amine Oxidase with the V and C22 Domains of Sialic Acid-Binding Immunoglobulin-Like Lectin-9 Regulate Its Binding and Amine Oxidase Activity
Cited by: 9
Author(s): Heli Elovaara, Vimal Parkash, Ruth Fair-Mäkelä, Outi M. H. Salo‐Ahen, Gabriela Guédez, Eva Bligt-Lindén, Janne Grönholm, Sirpa Jalkanen, Tiina A. Salminen
Software Mentions: 1
Published: almost 9 years ago

10.1371/journal.pone.0158434

It All Starts with a Sandwich: Identification of Sialidases with Trans-Glycosylation Activity
Cited by: 17
Author(s): Rune Thorbjørn Nordvang, Christian Nyffenegger, Jesper Holck, Carsten Jers, Birgitte Zeuner, Ulrik Kræmer Sundekilde, Anne S. Meyer, Jørn Dalgaard Mikkelsen
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0188407

Docking analysis and the possibility of prediction efficacy for an anti-IL-13 biopharmaceutical treatment with tralokinumab and lebrikizumab for bronchial asthma
Cited by: 15
Author(s): Yutaka Nakamura, Aki Sugano, Mika Ohta, Yutaka Takaoka
Software Mentions: 1
Published: almost 8 years ago

10.1371/journal.pone.0028511

Structural Analysis of the UBA Domain of X-linked Inhibitor of Apoptosis Protein Reveals Different Surfaces for Ubiquitin-Binding and Self-Association
Cited by: 20
Author(s): Man Kit Tse, Sin Kam Hui, Yinhua Yang, Shutao Yin, Hongyu Hu, Bing Zou, Benjamin C.Y. Wong, Kong Hung Sze
Software Mentions: 1
Published: almost 14 years ago

10.1371/journal.pone.0014217

Molecular Dynamics Simulation Studies of GLUT4: Substrate-Free and Substrate-Induced Dynamics and ATP-Mediated Glucose Transport Inhibition
Cited by: 25
Author(s): Suma Mohan, Aswathy Sheena, Ninu Poulose, Anilkumar Gopalakrishnapillai
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pone.0166167

The Outer Pore and Selectivity Filter of TRPA1
Cited by: 18
Author(s): Adam Christensen, Nurunisa Akyuz, David P. Corey
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0045929

The Fungal Pathogen Moniliophthora perniciosa Has Genes Similar to Plant PR-1 That Are Highly Expressed during Its Interaction with Cacao
Cited by: 33
Author(s): Paulo José Pereira Lima Teixeira, Daniela P. T. Thomazella, Ramón Vidal, Paula Favoretti Vital do Prado, Osvaldo Reis, Renata Moro Baroni, Sulamita F. Franco, Piotr A. Mieczkowski, Gonçalo Amarante Guimarães Pereira, Jorge Maurı́cio Costa Mondego
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0097782

Helicobacter pylori CagL Y58/E59 Mutation Turns-Off Type IV Secretion-Dependent Delivery of CagA into Host Cells
Cited by: 29
Author(s): Nicole Tegtmeyer, Judith Lind, Benedikt Schmid, Steffen Backert
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0016544

Allelic Diversity of the Plasmodium falciparum Erythrocyte Membrane Protein 1 Entails Variant-Specific Red Cell Surface Epitopes
Cited by: 37
Author(s): Inès Vigan-Womas, Micheline Guillotte, Alexandre Juillerat, Cindy Vallières, Anita Lewit-Bentley, Adama Tall, Laurence Baril, G.A. Bentley, Odile Mercereau‐Puijalon
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pone.0079082

The Tumor Targeted Superantigen ABR-217620 Selectively Engages TRBV7-9 and Exploits TCR-pMHC Affinity Mimicry in Mediating T Cell Cytotoxicity
Cited by: 15
Author(s): Gunnar Hedlund, Helena Eriksson, Anette Sundstedt, G. Forsberg, Bent K. Jakobsen, Nicholas J. Pumphrey, K.E.J. Rodstrom, Karin Lindkvist‐Petersson, Per Björk
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pone.0038126

The Epitope and Neutralization Mechanism of AVFluIgG01, a Broad-Reactive Human Monoclonal Antibody against H5N1 Influenza Virus
Cited by: 25
Author(s): Ziping Cao, Jia-Zi Meng, Xingxing Li, Ruiping Wu, Yanxin Huang, Yuxian He
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0125293

Computational Tools for Interpreting Ion Channel pH-Dependence
Cited by: 8
Author(s): Ivan Sazanavets, Jim Warwicker
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0104865

Functional Roles of the Dimer-Interface Residues in Human Ornithine Decarboxylase
Cited by: 8
Author(s): Chien Yun Lee, Yi Liang Liu, Chih Li Lin, Guang Yaw Liu, Hui‐Chih Hung
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pone.0143407

Functional Characterization of Germline Mutations in PDGFB and PDGFRB in Primary Familial Brain Calcification
Cited by: 72
Author(s): Michael Vanlandewijck, Thibaud Lebouvier, Maarja Andaloussi Mäe, Khayrun Nahar, Simone Hornemann, David Kenkel, Sara I. Cunha, Johan Lennartsson, Andreas Boss, Carl‐Henrik Heldin, Annika Keller, Christer Betsholtz
Software Mentions: 1
Published: almost 10 years ago

10.1371/journal.pone.0199397

In silico and in vitro analysis of boAP3d1 protein interaction with bovine leukaemia virus gp51
Cited by: 13
Author(s): Adriana Corredor, Janneth González, Luís Baquero, Hernando Curtidor, Nury N. Olaya-Galán, Manuel A. Patarroyo, María Lucía Lahoz Gutiérrez
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0104001

Engineering Neprilysin Activity and Specificity to Create a Novel Therapeutic for Alzheimer’s Disease
Cited by: 43
Author(s): Cecelia Webster, Matthew Burrell, Lars‐Inge Olsson, Susan B. Fowler, Sarah Digby, Alan M. Sandercock, Arjan Snijder, Jan Tebbe, Ulrich Haupts, Joanna Grudzinska, Lutz Jermutus, Christin Andersson
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0212299

S100A4 inhibits cell proliferation by interfering with the S100A1-RAGE V domain
Cited by: 4
Author(s): Md. Imran Khan, Tai Yi Yuan, Ruey Hwang Chou, Chin Yu
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0117823

Insights into the Cellular Function of YhdE, a Nucleotide Pyrophosphatase from Escherichia coli
Cited by: 8
Author(s): Jin Jin, Rui-Juan Wu, Jia Zhu, Suwen Yang, Zhen Lei, Nan Wang, Vinay Kumar Singh, Jimin Zheng, Zongchao Jia
Software Mentions: 1
Published: almost 11 years ago

10.1371/journal.pone.0076128

Identification and Structural-Functional Analysis of Cyclin-Dependent Kinases of the Cattle Tick Rhipicephalus (Boophilus) microplus
Cited by: 5
Author(s): Helga Gomes, Nelilma C. Romeiro, Glória R.C. Braz, Eduardo Alves Gamosa de Oliveira, Camilla Rodrigues, Rodrigo Nunes da Fonseca, Naftaly Githaka, Masayoshi Isezaki, Satoru Konnai, Kazuhiko Ohashi, Itabajara da Silva Vaz, Carlos Logullo, João Antônio de Moraes
Software Mentions: 1
Published: about 12 years ago

10.1371/journal.pone.0016244

Identification of Lysine 37 of Histone H2B as a Novel Site of Methylation
Cited by: 32
Author(s): Kathryn E. Gardner, Li Zhou, Michael A. Parra, Xian Chen, Brian D. Strahl
Software Mentions: 1
Published: almost 15 years ago

10.1371/journal.pone.0008672

Critical Structural and Functional Roles for the N-Terminal Insertion Sequence in Surfactant Protein B Analogs
Cited by: 49
Author(s): Frans J. Walther, Alan J. Waring, José M. Hernández-Juviel, Larry M. Gordon, Zhengdong Wang, Chun‐Ling Jung, Piotr Ruchala, Andrew P. Clark, Wesley M. Smith, Sanjai Sharma, Robert H. Notter
Software Mentions: 1
Published: almost 16 years ago

10.1371/journal.pone.0151806

Involvement of Endoplasmic Reticulum Stress in TULP1 Induced Retinal Degeneration
Cited by: 23
Author(s): Glenn P. Lobo, Adrian Au, Philip D. Kiser, Stephanie A. Hagstrom
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0010104

Protein Evolution via Amino Acid and Codon Elimination
Cited by: 9
Author(s): Lise Goltermann, Marie Sofie Yoo Larsen, Rajat Banerjee, A.C. Joerger, Michael Ibba, Thomas Bentin
Software Mentions: 1
Published: over 15 years ago

10.1371/journal.pone.0021875

Structural and Sequence Analysis of Imelysin-Like Proteins Implicated in Bacterial Iron Uptake
Cited by: 18
Author(s): Qingping Xu, Neil D. Rawlings, Carol L. Farr, Hsiu‐Ju Chiu, Joanna C Grant, Lukasz Jaroszewski, Heath E. Klock, Mark W. Knuth, Mitchell D. Miller, Dana Weekes, Marc‐André Elsliger, Ashley M. Deacon, Adam Godzik, Scott A. Lesley, Ian A. Wilson
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0083958

Functional Consequences of the Macrophage Stimulating Protein 689C Inflammatory Bowel Disease Risk Allele
Cited by: 16
Author(s): Steven E. Kauder, Lydia Santell, Elaine Mai, Lilyan Wright, Elizabeth Luis, Elsa N N'Diaye, Jeff Lutman, Navneet Ratti, M. Susan, Henry R. Maun, Eric Stefanich, Lino C. Gonzalez, Robert Graham, Lauri Diehl, William A. Faubion, Mary E. Keir, Judy Young, Amitabha Chaudhuri, Robert A. Lazarus, Jackson G. Egen
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pone.0173582

Identification of small molecule inhibitors for influenza a virus using in silico and in vitro approaches
Cited by: 24
Author(s): Juliann Nzembi Makau, Ken Watanabe, Takeshi Ishikawa, Satoshi Mizuta, Takashi Hamada, Nobuyuki Kobayashi, Naoshi Nishida
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0124377

Molecular Dynamics Simulation Reveals Insights into the Mechanism of Unfolding by the A130T/V Mutations within the MID1 Zinc-Binding Bbox1 Domain
Cited by: 46
Author(s): Yunjie Zhao, Chen Zeng, Michael A. Massiah
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0049849

A Computational Methodology to Screen Activities of Enzyme Variants
Cited by: 16
Author(s): Martin R. Hediger, Luca De Vico, Allan Svendsen, Werner Besenmatter, Jan H. Jensen
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0044317

Sub-Domains of Ricin’s B Subunit as Targets of Toxin Neutralizing and Non-Neutralizing Monoclonal Antibodies
Cited by: 31
Author(s): Anastasiya Yermakova, David J. Vance, Nicholas J. Mantis
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0027228

Profiling of Substrate Specificities of 3C-Like Proteases from Group 1, 2a, 2b, and 3 Coronaviruses
Cited by: 69
Author(s): Chi-Pang Chuck, Hak‐Fun Chow, David Chi Cheong Wan, Kam‐Bo Wong
Software Mentions: 1
Published: about 14 years ago

10.1371/journal.pone.0193667

Crystal structure and insights into the oligomeric state of UDP-glucose pyrophosphorylase from sugarcane
Cited by: 11
Author(s): Camila A. Cotrim, José Sérgio Soares, Boštjan Kobe, Marcelo Menossi
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0053840

Crystallographic Observation of pH-Induced Conformational Changes in the Amyelois transitella Pheromone-Binding Protein AtraPBP1
Cited by: 35
Author(s): Eric di Luccio, Yuko Ishida, Walter S. Leal, D. Keith Wilson
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0028833

Effect of P to A Mutation of the N-Terminal Residue Adjacent to the Rgd Motif on Rhodostomin: Importance of Dynamics in Integrin Recognition
Cited by: 11
Author(s): Jia Hau Shiu, Chiu Yueh Chen, Yi Chun Chen, Yao Chang, Yung Sheng Chang, Chen‐Hung Huang, Woei Jer Chuang
Software Mentions: 1
Published: almost 14 years ago

10.1371/journal.pone.0134879

Molecular Dynamics Simulation Studies of dTTP Binding and Catalysis Mediated by YhdE Dimerization
Cited by: 7
Author(s): Nan Wang, Jiahong Jiang, Xichen Li, Hongwei Tan, Jimin Zheng, Guangju Chen, Zongchao Jia
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0164662

The Biophysical Characterisation and SAXS Analysis of Human NLRP1 Uncover a New Level of Complexity of NLR Proteins
Cited by: 12
Author(s): Luigi Martino, Louise Holland, Evangelos Christodoulou, Simone Kunzelmann, Diego Esposito, Katrin Rittinger
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0177330

Action of tyrosinase on alpha and beta-arbutin: A kinetic study
Cited by: 46
Author(s): Antonio García‐Jiménez, José A. Teruel, José Berná, José Neptuno Rodríguez-López, José Tudela, Francisco Garcı́a-Cánovas
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0221666

Structural analysis of the recognition of the -35 promoter element by SigW from Bacillus subtilis
Cited by: 5
Author(s): Eunju Kwon, Shankar Raj Devkota, Deepak Pathak, Pawan Dahal, Dong Young Kim
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pone.0026939

Structure Analysis of a New Psychrophilic Marine Protease
Cited by: 16
Author(s): Si-Cai Zhang, Ming Sun, Li Tang, Qihai Wang, Jianhua Hao, Yujie Han, Xiaojian Hu, Ming Zhou, Sheng‐Xiang Lin
Software Mentions: 1
Published: almost 14 years ago

10.1371/journal.pone.0007179

βα-Hairpin Clamps Brace βαβ Modules and Can Make Substantive Contributions to the Stability of TIM Barrel Proteins
Cited by: 18
Author(s): Xiao-Yan Yang, Sagar V. Kathuria, Ramakrishna Vadrevu, C. Robert Matthews
Software Mentions: 1
Published: about 16 years ago

10.1371/journal.pone.0079687

High Resolution Crystal Structure of Human β-Glucuronidase Reveals Structural Basis of Lysosome Targeting
Cited by: 50
Author(s): Md. Imtaiyaz Hassan, Abdül Waheed, Jeffery H. Grubb, Herbert E. Klei, Sergey Korolev, William S. Sly
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pone.0120692

On the Role of Protein Disulfide Isomerase in the Retrograde Cell Transport of Secreted Phospholipases A2
Cited by: 9
Author(s): Jernej Oberčkal, Lidija Kovačič, Jernej Šribar, Adrijana Leonardi, Klemen Dolinar, Anja Pucer Janež, Igor Križaj
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0185060

Identification and molecular characterization of a metagenome-derived L-lysine decarboxylase gene from subtropical soil microorganisms
Cited by: 11
Author(s): Jie Deng, Hua Gao, Zhen Gao, Huaxian Zhao, Ying Yang, Qiaofen Wu, Bo Wu, Chengjian Jiang
Software Mentions: 1
Published: about 8 years ago

10.1371/journal.pone.0107457

Small-Angle X-Ray Scattering Reveals Compact Domain-Domain Interactions in the N-Terminal Region of Filamin C
Cited by: 10
Author(s): Ritika Sethi, Jari Ylänne
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pone.0055516

Isolation of a High Affinity Neutralizing Monoclonal Antibody against 2009 Pandemic H1N1 Virus That Binds at the ‘Sa’ Antigenic Site
Cited by: 13
Author(s): Nachiket Shembekar, Vamsee Mallajosyula, Arpita Mishra, Leena Yeolekar, Rajeev M. Dhere, Subhash V. Kapre, Raghavan Varadarajan, Seema Gupta
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0210100

Holistic engineering of Cal-A lipase chain-length selectivity identifies triglyceride binding hot-spot
Cited by: 13
Author(s): Daniela Quaglia, Lorea Alejaldre, Sara Ouadhi, Olivier Rousseau, Joelle N. Pelletier
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.pone.0180772

Comparative studies of three cholesteryl ester transfer proteins and their interactions with known inhibitors
Cited by: 3
Author(s): Ziyun Wang, Manabu Niimi, Qiao Ding, Zhenming Liu, Ling Wang, Jifeng Zhang, Jun Xu, Jianglin Fan
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0182382

Crystal structure of mimivirus uracil-DNA glycosylase
Cited by: 5
Author(s): Eunju Kwon, Deepak Pathak, Hyeun Wook Chang, Dong Young Kim
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0029948

Structural and Functional Insights into Endoglin Ligand Recognition and Binding
Cited by: 86
Author(s): Aaron Alt, Laura Miguel-Romero, Jordi Donderis, Mikel Aristorena, Francisco J. Blanco, Adam Round, Vicente Rubio, Carmelo Bernabeu, Alberto Marina
Software Mentions: 1
Published: almost 14 years ago

10.1371/journal.pone.0087750

CorA Is a Copper Repressible Surface-Associated Copper(I)-Binding Protein Produced in Methylomicrobium album BG8
Cited by: 13
Author(s): Kenneth A. Johnson, Thomas Ve, Øivind Larsen, Rolf B. Pedersen, Johan R. Lillehaug, Harald B. Jensen, Ronny Helland, Odd André Karlsen
Software Mentions: 1
Published: almost 12 years ago

10.1371/journal.pone.0054899

Potassium and Ionic Strength Effects on the Conformational and Thermal Stability of Two Aldehyde Dehydrogenases Reveal Structural and Functional Roles of K+-Binding Sites
Cited by: 13
Author(s): Georgina Garza‐Ramos, Carlos Mújica-Jiménez, Rosario A. Muñoz‐Clares
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0094978

Identification of a Novel Function of CX-4945 as a Splicing Regulator
Cited by: 70
Author(s): Hyeongki Kim, Kwangman Choi, Hyunju Kang, So-Young Lee, Seung‐Wook Chi, Min‐Sung Lee, Song Jaehyoung, Im Donghwa, Young‐Ho Choi, Sungchan Cho
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0048389

Predicting Turns in Proteins with a Unified Model
Cited by: 6
Author(s): Qi Song, Tonghua Li, Cong Peng, Jiangming Sun, Dapeng Li, Shengnan Tang
Software Mentions: 1
Published: about 13 years ago

10.1371/journal.pone.0021327

High-Resolution X-Ray Structure of the Trimeric Scar/WAVE-Complex Precursor Brk1
Cited by: 10
Author(s): Joern Linkner, Gregor Witte, Theresia E. B. Stradal, Ute Curth, Jan Faix
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0092727

The 2.1 Å Resolution Structure of Cyanopindolol-Bound β1-Adrenoceptor Identifies an Intramembrane Na+ Ion that Stabilises the Ligand-Free Receptor
Cited by: 156
Author(s): Jennifer Miller-Gallacher, Rony Nehmé, Tony Warne, Patricia C. Edwards, Gebhard F. X. Schertler, Andrew G. W. Leslie, Christopher G. Tate
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0042536

The Expression of Tubulin Cofactor A (TBCA) Is Regulated by a Noncoding Antisense Tbca RNA during Testis Maturation
Cited by: 22
Author(s): Sofia Nolasco, Javier Bellido, João Gonçalves, Alexandra Tavares, Juan Carlos Zabala, Helena Soares
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0183548

In silico analysis of protein toxin and bacteriocins from Lactobacillus paracasei SD1 genome and available online databases
Cited by: 24
Author(s): Komwit Surachat, Unitsa Sangket, Panchalika Deachamag, Wilaiwan Chotigeat
Software Mentions: 1
Published: about 8 years ago

10.1371/journal.pone.0165019

Step-Wise Increase in Tigecycline Resistance in Klebsiella pneumoniae Associated with Mutations in ramR, lon and rpsJ
Cited by: 34
Author(s): Fang Li, Qiong Chen, Kezhang Shi, Xi Li, Qiucheng Shi, Fang He, Jiancang Zhou, Yunsong Yu, Xiaoting Hua
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0192279

Genome analysis of a novel Group I alphabaculovirus obtained from Oxyplax ochracea
Cited by: 4
Author(s): Jun Wang, Dianhai Hou, Qianran Wang, Wenhua Kuang, Lei Zhang, Li Jiang, Shū Shěn, Fei Deng, Hualin Wang, Zhìhóng Hú
Software Mentions: 1
Published: almost 8 years ago

10.1371/journal.pone.0056725

In-Silico Structural and Functional Characterization of a V. cholerae O395 Hypothetical Protein Containing a PDZ1 and an Uncommon Protease Domain
Cited by: 6
Author(s): Avirup Dutta, Atul Katarkar, Keya Chaudhuri
Software Mentions: 1
Published: almost 13 years ago

10.1371/journal.pone.0126864

Contribution of Disulfide Bridges to the Thermostability of a Type A Feruloyl Esterase from Aspergillus usamii
Cited by: 27
Author(s): Xin Yin, Die Hu, Jianfang Li, Yao He, Tian-Di Zhu, Minchen Wu
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0182296

Crystal structure of Qa-1a with bound Qa-1 determinant modifier peptide
Cited by: 5
Author(s): Guoqing Ying, Jing Wang, Vipin Kumar, Dirk M. Zajonc
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0104794

Molecular and Evolutionary Analysis of NEAr-Iron Transporter (NEAT) Domains
Cited by: 28
Author(s): Erin S. Honsa, Anthony W. Maresso, Sarah K. Highlander
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pone.0136474

Mutations in the DI-DII Linker of Human Parainfluenza Virus Type 3 Fusion Protein Result in Diminished Fusion Activity
Cited by: 6
Author(s): Wenyan Xie, Hao Wen, Fulu Chu, Shaofeng Yan, Bingliang Lin, Wenli Xie, Ying Liu, Guijie Ren, Li Zhao, Yue Song, Chaoyang Sun, Zhiyu Wang
Software Mentions: 1
Published: about 10 years ago

10.1371/journal.pone.0043017

Solution Structural Analysis of the Single-Domain Parvulin TbPin1
Cited by: 7
Author(s): Lifang Sun, Xueji Wu, Yi Peng, Jian Yuan Goh, Yih‐Cherng Liou, Donghai Lin, Yufen Zhao
Software Mentions: 1
Published: over 13 years ago

10.1371/journal.pone.0120304

Crystal and EM Structures of Human Phosphoribosyl Pyrophosphate Synthase I (PRS1) Provide Novel Insights into the Disease-Associated Mutations
Cited by: 14
Author(s): Peng Chen, Li Zheng, Xuejuan Wang, Junxia Peng, Qianqian Sun, Jianzhong Li, Mingxing Wang, Liwen Niu, Zhiyong Zhang, Xuejuan Wang, Maikun Teng, Li Xu
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0097509

First Report of a Thioredoxin Homologue in Jellyfish: Molecular Cloning, Expression and Antioxidant Activity of CcTrx1 from Cyanea capillata
Cited by: 11
Author(s): Zengliang Ruan, Guoyan Liu, Yiting Guo, Yonghong Zhou, Qianqian Wang, Yinlong Chang, Beilei Wang, Jiemin Zheng, Liming Zhang
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0011289

The relBE2Spn Toxin-Antitoxin System of Streptococcus pneumoniae: Role in Antibiotic Tolerance and Functional Conservation in Clinical Isolates
Cited by: 33
Author(s): Concha Nieto, Ewa Sadowy, Adela G. de la Campa, Waleria Hryniewicz, Manuel Espinosa
Software Mentions: 1
Published: over 15 years ago

10.1371/journal.pone.0090435

Diapause-Associated Protein3 Functions as Cu/Zn Superoxide Dismutase in the Chinese Oak Silkworm (Antheraea pernyi)
Cited by: 10
Author(s): Zhenle Bi, Xiaoli Yang, Wengong Yu, Jianhong Shu, Yaozhou Zhang
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0106247

Functional and Bioinformatics Analysis of Two Campylobacter jejuni Homologs of the Thiol-Disulfide Oxidoreductase, DsbA
Cited by: 14
Author(s): Anna Grabowska, Ewa Wywiał, Stanisław Dunin-Horkawicz, Anna M. Łasica, Marc M. S. M. Wösten, Anna Staroń, Renata Godlewska, Katarzyna M. Bocian-Ostrzycka, Katarzyna Pieńkowska, Paweł Łaniewski, Janusz M. Bujnicki, Jos P. M. van Putten, Elżbieta Katarzyna Jagusztyn-Krynicka
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pone.0117204

Comparison of the Specificities of IgG, IgG-Subclass, IgA and IgM Reactivities in African and European HIV-Infected Individuals with an HIV-1 Clade C Proteome-Based Array
Cited by: 14
Author(s): Daniela Gallerano, Portia Ndlovu, Ian Makupe, Margarete Focke‐Tejkl, Kerstin Fauland, Eva Wollmann, Elisabeth Puchhammer‐Stöckl, Walter Keller, Elopy Sibanda, Rudolf Valenta
Software Mentions: 1
Published: almost 11 years ago

10.1371/journal.pone.0124152

Functional Validation of Rare Human Genetic Variants Involved in Homologous Recombination Using Saccharomyces cerevisiae
Cited by: 6
Author(s): Min-Soo Lee, Mi Htay Htay Yu, Kyoung‐Yeon Kim, Geun-Hee Park, KyuBum Kwack, Keun Pil Kim
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0166128

Characterisation of a New Family of Carboxyl Esterases with an OsmC Domain
Cited by: 14
Author(s): Mai Britt V Jensen, Louise Horsfall, Caroline Wardrope, Peter Togneri, Jon Marles‐Wright, Susan J. Rosser
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0102617

The Z Mutation Alters the Global Structural Dynamics of α1-Antitrypsin
Cited by: 18
Author(s): Victoria A. Hughes, Robert Meklemburg, Stephen P. Bottomley, Patrick L. Wintrode
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pone.0205618

Crystal structure of a Thermus aquaticus diversity-generating retroelement variable protein
Cited by: 5
Author(s): Sumit Handa, Kharissa L Shaw, Partho Ghosh
Software Mentions: 1
Published: almost 7 years ago

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: almost 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: over 14 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: almost 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: almost 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 12 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: over 11 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: about 10 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: about 12 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 14 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 9 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: over 14 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: over 12 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: almost 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 6 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: about 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: almost 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: over 8 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 10 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: over 4 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: about 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: over 5 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: over 6 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: about 10 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: over 11 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: almost 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: about 9 years ago

Projects: pypi: PyMOL

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Papers Mentioning PyMOL 8,266