pypi: PyMOL | Projects | Ecosyste.ms: Papers

10.1038/srep33548

Distinct Roles for the N- and C-terminal Regions of M-Sec in Plasma Membrane Deformation during Tunneling Nanotube Formation
Cited by: 35
Author(s): Shunsuke Kimura, Masami Yamashita, Megumi Yamakami-Kimura, Yusuke Sato, Atsushi Yamagata, Yoshihiro Kobashigawa, Fuyuhiko Inagaki, Takako Amada, Koji Hase, Toshihiko Iwanaga, Hiroshi Ohno, Shuya Fukai
Software Mentions: 2
Published: almost 10 years ago

10.1186/s12915-021-01039-8

Characterization of a novel type of carbonic anhydrase that acts without metal cofactors
Cited by: 30
Author(s): Yoshihisa Hirakawa, Masuo Senda, Kodai Fukuda, Hong Yang Yu, Masaki Ishida, M. Taira, Kazushi Kinbara, Toshiya Senda
Software Mentions: 2
Published: about 5 years ago

10.3389/fmicb.2018.01925

Characterization of ML-005, a Novel Metaproteomics-Derived Esterase
Cited by: 6
Author(s): Premankur Sukul, Natalie Lupilov, Lars I. Leichert
Software Mentions: 2
Published: almost 8 years ago

10.1107/S0907444910007493

Features and development of Coot
Cited by: 21,554
Author(s): Paul Emsley, Bernhard Lohkamp, William G. Scott, Kevin Cowtan
Software Mentions: 2
Published: over 16 years ago

10.1038/srep29097

Glycogen synthase kinase 3β suppresses polyglutamine aggregation by inhibiting Vaccinia-related kinase 2 activity
Cited by: 12
Author(s): Eun‐Ju Lee, Hye Guk Ryu, Sangjune Kim, Dohyun Lee, Young‐Hun Jeong, Kyong‐Tai Kim
Software Mentions: 2
Published: about 10 years ago

10.3389/fmicb.2017.00541

Crystal Structure of Glyceraldehyde-3-Phosphate Dehydrogenase from the Gram-Positive Bacterial Pathogen A. vaginae, an Immunoevasive Factor that Interacts with the Human C5a Anaphylatoxin
Cited by: 21
Author(s): Javier Querol-García, Francisco Fernández, Ana V. Marín, Sara Gómez, Daniel Fullà, Cecilia Melchor-Tafur, V. Franco-Hidalgo, Sebastián Albertí, Judith Juanhuix, Santiago Rodrı́guez de Córdoba, José R. Regueiro, M. Cristina Vega
Software Mentions: 2
Published: over 9 years ago

10.1016/j.matbio.2016.06.006

Crystallographic analysis of the laminin β2 short arm reveals how the LF domain is inserted into a regular array of LE domains
Cited by: 8
Author(s): David Pulido, Deg Briggs, Jinwen Hua, Erhard Hohenester
Software Mentions: 2
Published: over 9 years ago

10.1021/acschembio.1c00433

Reconstitution and Structural Analysis of a HECT Ligase-Ubiquitin Complex via an Activity-Based Probe
Cited by: 10
Author(s): Raji R. Nair, Ayshwarya Seenivasan, Bing Liu, Dan Chen, E.D. Lowe, Sonja Lorenz
Software Mentions: 2
Published: almost 5 years ago

10.1371/journal.pgen.1004533

The TRIM-NHL Protein LIN-41 Controls the Onset of Developmental Plasticity in Caenorhabditis elegans
Cited by: 59
Author(s): Cristina Tocchini, J.J. Keusch, Sarah Miller, Susanne Finger, H. Gut, Michael Stadler, Rafal Ciosk
Software Mentions: 2
Published: almost 12 years ago

10.3389/fmicb.2020.605705

Discovery of an Antibiotic-Related Small Protein of Biocontrol Strain Pseudomonas sp. Os17 by a Genome-Mining Strategy
Cited by: 1
Author(s): Kasumi Takeuchi, Wataru Tsuchiya, Zui Fujimoto, Kosumi Yamada, Nobutaka Someya, Toshimasa Yamazaki
Software Mentions: 2
Published: over 5 years ago

10.3389/fmicb.2021.670681

Structural Basis of RICs Iron Donation for Iron-Sulfur Cluster Biogenesis
Cited by: 4
Author(s): Liliana S. O. Silva, Pedro M. Matías, Célia V. Romão, Lı́gia M. Saraiva
Software Mentions: 2
Published: about 5 years ago

10.3389/fpls.2019.01229

Crystal Structure Of Photorespiratory Alanine:Glyoxylate Aminotransferase 1 (AGT1) From Arabidopsis thaliana
Cited by: 9
Author(s): Aaron H. Liepman, J. Vijayalakshmi, Daniel Peisach, Brian Hulsebus, Laura J. Olsen, Mark A. Saper
Software Mentions: 2
Published: over 6 years ago

10.1186/s12918-017-0427-z

A scalable metabolite supplementation strategy against antibiotic resistant pathogen Chromobacterium violaceum induced by NAD+/NADH+ imbalance
Cited by: 17
Author(s): Deepanwita Banerjee, Dharmeshkumar Parmar, Nivedita Bhattacharya, Avinash D. Ghanate, Venkateswarlu Panchagnula, Anu Raghunathan
Software Mentions: 2
Published: about 9 years ago

10.3390/genes10060421

Engineering CatM, a LysR-Type Transcriptional Regulator, to Respond Synergistically to Two Effectors
Cited by: 9
Author(s): Melissa Tumen-Velasquez, Nicole S. Laniohan, Cory Momany, Ellen L. Neidle
Software Mentions: 2
Published: about 7 years ago

10.1186/s12917-019-2161-9

Bioinformatics analysis of capsid protein of different subtypes rabbit hemorrhagic disease virus
Cited by: 1
Author(s): Ruibin Qi, Jie Zhu, Qiuhong Miao, Aoxing Tang, De-Li Dong, Xiaoxue Wang, Guangqing Liu
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.ppat.1006935

Structural basis for recognition of the central conserved region of RSV G by neutralizing human antibodies
Cited by: 45
Author(s): Harrison G. Jones, Tina Ritschel, Gabriel Pascual, Just P. J. Brakenhoff, Elissa Keogh, Polina Furmanova-Hollenstein, Ellen Lanckacker, Jehangir S. Wadia, M.S.A. Gilman, R. Anthony Williamson, Dirk Roymans, Angélique B. van ’t Wout, Johannes P. M. Langedijk, Jason S. McLellan
Software Mentions: 2
Published: over 8 years ago

10.3389/fmicb.2018.01466

Insight Into the Interaction Between RNA Polymerase and VPg for Murine Norovirus Replication
Cited by: 10
Author(s): Jihye Lee, Beom Seok Park, Kang Rok Han, Scott B. Biering, Soo J Kim, Jayoung Choi, Jong Hyeon Seok, Intekhab Alam, Mi Sook Chung, Ho M. Kim, Seungmin Hwang, Kyung H. Kim
Software Mentions: 2
Published: about 8 years ago

10.1186/1471-2105-12-421

Automated NMR relaxation dispersion data analysis using NESSY
Cited by: 62
Author(s): Martin Bieri, Paul R. Gooley
Software Mentions: 2
Published: over 14 years ago

10.3389/fmicb.2021.669220

Interrogating the Role of the Two Distinct Fructose-Bisphosphate Aldolases of Bacillus methanolicus by Site-Directed Mutagenesis of Key Amino Acids and Gene Repression by CRISPR Interference
Cited by: 6
Author(s): Kerstin Schultenkämper, Desirée D. Gütle, Marina Gil López, Laura B. Keller, Lin Zhang, Oliver Einsle, Jean‐Pierre Jacquot, Volker F. Wendisch
Software Mentions: 2
Published: about 5 years ago

10.3389/fmed.2021.724826

Novel MYO1D Missense Variant Identified Through Whole Exome Sequencing and Computational Biology Analysis Expands the Spectrum of Causal Genes of Laterality Defects
Cited by: 5
Author(s): Rabab Said Alsafwani, Khalidah Khalid Nasser, Thoraia Shinawi, Babajan Banaganapalli, Hanan Abdelhalim ElSokary, Zhaher F. Zaher, Noor Ahmad Shaik, Gaser Abdelmohsen, Jumana Y. Al‐Aama, Adam J. Shapiro, Osman O. Al‐Radi, Turki S Alahmadi
Software Mentions: 2
Published: almost 5 years ago

10.1371/journal.pcbi.1002404

Epitope Flexibility and Dynamic Footprint Revealed by Molecular Dynamics of a pMHC-TCR Complex
Cited by: 54
Author(s): Cyril Reboul, Grischa R. Meyer, Benjamin T. Porebski, Natalie A. Borg, Ashley M. Buckle
Software Mentions: 2
Published: over 14 years ago

10.3389/fmed.2021.694668

Saudi Familial Hypercholesterolemia Patients With Rare LDLR Stop Gain Variant Showed Variable Clinical Phenotype and Resistance to Multiple Drug Regimen
Cited by: 6
Author(s): Zuhier Awan, Omran M. Rashidi, Bandar Ali Al-Shehri, Kaiser Jamil, Ramu Elango, Jumana Y. Al‐Aama, Robert A. Hegele, Noor Ahmad Shaik
Software Mentions: 2
Published: about 5 years ago

10.3389/fmicb.2020.00583

The Interaction of RecA With Both CheA and CheW Is Required for Chemotaxis
Cited by: 3
Author(s): Elisabet Frutos-Grilo, María Marsal, Oihane Irazoki, Jordi Barbé, Susana Campoy
Software Mentions: 2
Published: over 6 years ago

10.3389/fmicb.2021.659808

A MexR Mutation Which Confers Aztreonam Resistance to Pseudomonas aeruginosa
Cited by: 9
Author(s): Zhenzhen Ma, Congjuan Xu, Xinxin Zhang, Dan Wang, Xiaolei Pan, Huimin Liu, Guangbo Zhu, Fang Bai, Zhihui Cheng, Weihui Wu, Yongxin Jin
Software Mentions: 2
Published: about 5 years ago

10.3389/fimmu.2021.625808

Structural Basis of VSIG3: The Ligand for VISTA
Cited by: 11
Author(s): Xiaoxue Xie, Caiping Chen, Wenting Chen, Jingwei Jiang, Lanlan Wang, Tingting Li, Hongbin Sun, Jun Li
Software Mentions: 2
Published: over 5 years ago

10.3389/fimmu.2017.00771

Nanobody Technology: A Versatile Toolkit for Microscopic Imaging, Protein–Protein Interaction Analysis, and Protein Function Exploration
Cited by: 142
Author(s): Els Beghein, Jan Gettemans
Software Mentions: 2
Published: about 9 years ago

10.3389/fimmu.2018.00489

Computational Insight Into the Structural Organization of Full-Length Toll-Like Receptor 4 Dimer in a Model Phospholipid Bilayer
Cited by: 17
Author(s): Mahesh Chandra Patra, Hyuk‐Kwon Kwon, Maria Batool, Sangdun Choi
Software Mentions: 2
Published: over 8 years ago

10.3389/fimmu.2019.01485

Key Features Relevant to Select Antigens and TCR From the MHC-Mismatched Repertoire to Treat Cancer
Cited by: 8
Author(s): Stefan Audehm, Manuel Glaser, Matteo Pecoraro, Eva Bräunlein, Sabine Mall, Klar Richard, Manuel Effenberger, Julian J Albers, Henrique Bianchi, Janet Kerstin Peper, Nahid Yusufi, Dirk H. Busch, Stefan Stevanović, Matthias Mann, Iris Antes, Angela M. Krackhardt
Software Mentions: 2
Published: about 7 years ago

10.1186/s12862-021-01819-4

Searching for signatures of positive selection in cytochrome b gene associated with subterranean lifestyle in fast-evolving arvicolines (Arvicolinae, Cricetidae, Rodentia)
Cited by: 5
Author(s): Olga Bondareva, Nadezhda A. Potapova, Kirill A. Konovalov, Tatyana V. Petrova, Natalia I. Abramson
Software Mentions: 2
Published: about 5 years ago

10.1016/j.bbrep.2016.03.004

Molecular docking, a tool to determine interaction of CuO and TiO 2 nanoparticles with human serum albumin
Cited by: 18
Author(s): Sandesh Chibber, Irshad Ahmad
Software Mentions: 2
Published: about 10 years ago

10.1371/journal.ppat.1003563

Crystal Structure of Vaccinia Viral A27 Protein Reveals a Novel Structure Critical for Its Function and Complex Formation with A26 Protein
Cited by: 25
Author(s): Tang‐Hsien Chang, Shu-Han Chang, Fu-Lien Hsieh, Tzu‐Ping Ko, Cheng-Tse Lin, Meng‐Ru Ho, Iren Wang, Shang-Te Danny Hsu, Rey‐Ting Guo, Wen Chang, Andrew H.-J. Wang
Software Mentions: 2
Published: almost 13 years ago

10.1016/j.bbrep.2021.100982

Repurposing of approved drugs with potential to interact with SARS-CoV-2 receptor
Cited by: 5
Author(s): Tamim Ahsan, Abu Ashfaqur Sajib
Software Mentions: 2
Published: about 5 years ago

10.1371/journal.pcbi.1000306

Mechanical Network in Titin Immunoglobulin from Force Distribution Analysis
Cited by: 66
Author(s): Wolfram Stacklies, M. Cristina Vega, Matthias Wilmanns, Frauke Gräter
Software Mentions: 2
Published: over 17 years ago

10.3389/fimmu.2020.02074

Computational Design of a Novel VLP-Based Vaccine for Hepatitis B Virus
Cited by: 11
Author(s): Saeed Mobini, Milad Chizari, Ladan Mafakher, Elmira Rismani, Elham Rismani
Software Mentions: 2
Published: almost 6 years ago

10.3389/fimmu.2014.00022

Immunoglobulin and T Cell Receptor Genes: IMGT® and the Birth and Rise of Immunoinformatics
Cited by: 168
Author(s): Marie‐Paule Lefranc
Software Mentions: 2
Published: over 12 years ago

10.3389/fmicb.2018.03329

Structural and Physiological Exploration of Salmonella Typhi YfdX Uncovers Its Dual Function in Bacterial Antibiotic Stress and Virulence
Cited by: 6
Author(s): Hye Seon Lee, Mi Kyung Lee, Jun‐Seob Kim, Hae-Ran Lee, Hang‐Sik Shin, Moo‐Seung Lee, Kyeong Sik Jin, Cheol-Hee Kim, Bonsu Ku, Choong-Min Ryu, Seung Jun Kim
Software Mentions: 2
Published: over 7 years ago

10.3389/fcimb.2020.560240

Systems Biology Approaches for Therapeutics Development Against COVID-19
Cited by: 12
Author(s): Shweta Jaiswal, Mohit Kumar, Mandeep, Sunita Sunita, Yogendra Singh, Pratyoosh Shukla
Software Mentions: 2
Published: over 5 years ago

10.1042/BCJ20200128

Nek7 conformational flexibility and inhibitor binding probed through protein engineering of the R-spine
Cited by: 10
Author(s): Matthew J. Byrne, Nazia Nasir, Christine Basmadjian, Chitra Bhatia, Rory F. Cunnison, Katherine H. Carr, Corine Mas-Droux, Sharon Yeoh, Céline Cano, Richard Bayliss
Software Mentions: 2
Published: about 6 years ago

10.1107/S139900471501857X

Native sulfur/chlorine SAD phasing for serial femtosecond crystallography
Cited by: 50
Author(s): Takanori Nakane, Changyong Song, Mamoru Suzuki, Eriko Nango, Jun Kobayashi, Tetsuya Masuda, Shiro Inoue, Eiichi Mizohata, Toru Nakatsu, Tomoyuki Tanaka, Rie Tanaka, Tatsuro Shimamura, Kensuke Tono, Yasumasa Joti, Takashi Kameshima, Takaki Hatsui, Makina Yabashi, Osamu Nureki, So Iwata, Michihiro Sugahara
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pcbi.1004398

An Integrated Framework Advancing Membrane Protein Modeling and Design
Cited by: 140
Author(s): Rebecca F. Alford, Julia Koehler Leman, Brian D. Weitzner, Amanda Duran, Drew C. Tilley, Assaf Elazar, Jeffrey J. Gray
Software Mentions: 2
Published: almost 11 years ago

10.1042/BCJ20200507

Fragment-derived modulators of an industrial β-glucosidase
Cited by: 2
Author(s): Eleni Makraki, John F. Darby, Marta G. Carneiro, James D. Firth, Alex Heyam, Eiso Ab, Peter O’Brien, Gregg Siegal, Roderick E. Hubbard
Software Mentions: 2
Published: over 5 years ago

10.3389/fcell.2021.650344

Genetic Screening Revealed Latent Keratoconus in Asymptomatic Individuals
Cited by: 6
Author(s): Shihao Chen, Xing-Yong Li, Jiajia Jin, Ren‐Juan Shen, Jian-Yang Mao, Feifei Cheng, Zhen‐Ji Chen, Emmanouela Linardaki, Stavroula Voulgaraki, Ioannis M. Aslanides, Zi‐Bing Jin
Software Mentions: 2
Published: about 5 years ago

10.3389/fcimb.2018.00249

Incompatible Translation Drives a Convergent Evolution and Viral Attenuation During the Development of Live Attenuated Vaccine
Cited by: 12
Author(s): Xumin Ou, Mingshu Wang, Sai Mao, Jingyu Cao, Anchun Cheng, Dekang Zhu, Shun Chen, Renyong Jia, Mafeng Liu, Qiao Yang, Ying Wu, Xinxin Zhao, Shaqiu Zhang, Yunya Liu, Yanling Yu, Ling Zhang, Xiaoyue Chen, Maikel P. Peppelenbosch
Software Mentions: 2
Published: almost 8 years ago

10.1107/S205979831801519X

Iron–sulfur clusters have no right angles
Cited by: 15
Author(s): Nigel W. Moriarty, Paul D. Adams
Software Mentions: 2
Published: over 7 years ago

10.3389/fcell.2021.690461

Phosphoinositide Recognition Sites Are Blocked by Metabolite Attachment
Cited by: 5
Author(s): Troy A. Kervin, Brittany Wiseman, Michael Overduin
Software Mentions: 2
Published: almost 5 years ago

10.3389/fcell.2021.631428

OTUD5 Variants Associated With X-Linked Intellectual Disability and Congenital Malformation
Cited by: 3
Author(s): Ken Saida, Tokiko Fukuda, Daryl A. Scott, Toru Sengoku, Kazuhiro Ogata, Angelo Nicosia, Andrés Hernández-García, Seema R. Lalani, Mahshid S. Azamian, Haley Streff, Pengfei Liu, Hongzheng Dai, Takeshi Mizuguchi, Satoko Miyatake, Miki Asahina, Tsutomu Ogata, Noriko Miyake, Naomichi Matsumoto
Software Mentions: 2
Published: over 5 years ago

10.3389/fcell.2020.628222

Structural and Biochemical Characterization of EFhd1/Swiprosin-2, an Actin-Binding Protein in Mitochondria
Cited by: 6
Author(s): Sang A Mun, Jongseo Park, Kyoung Ryoung Park, Youngjin Lee, Jung Youn Kang, Tae‐In Park, Minho Jin, Jamie O. Yang, Chang‐Duk Jun, Soo Hyun Eom
Software Mentions: 2
Published: over 5 years ago

10.3389/fcimb.2018.00051

Structural Insights into the Mechanisms of Action of Short-Peptide HIV-1 Fusion Inhibitors Targeting the Gp41 Pocket
Cited by: 13
Author(s): Xiujuan Zhang, Yuanmei Zhu, Hao Hu, Senyan Zhang, Pengfei Wang, Huihui Chong, Jin‐Sheng He, Xinquan Wang, Yuxian He
Software Mentions: 2
Published: over 8 years ago

10.3389/fbioe.2021.674211

Pepblock Builder VR – An Open-Source Tool for Gaming-Based Bio-Edutainment in Interactive Protein Design
Cited by: 6
Author(s): Venkata V. B. Yallapragada, Tao Xu, Sidney P. Walker, Sabin Tabirca, Mark Tangney
Software Mentions: 2
Published: about 5 years ago

10.3389/fbioe.2020.568318

Elfin UI: A Graphical Interface for Protein Design With Modular Building Blocks
Cited by: 2
Author(s): Chun-Ting Yeh, Leon Obendorf, Fabio Parmeggiani
Software Mentions: 2
Published: over 5 years ago

10.3389/fbioe.2020.00873

Comparative Characterization of Aspergillus Pectin Lyases by Discriminative Substrate Degradation Profiling
Cited by: 14
Author(s): Birgitte Zeuner, Thore Bach Thomsen, Mary A. Stringer, Kristian B. R. M. Krogh, Anne S. Meyer, Jesper Holck
Software Mentions: 2
Published: almost 6 years ago

10.3389/fbioe.2015.00082

Conserved Functional Motifs and Homology Modeling to Predict Hidden Moonlighting Functional Sites
Cited by: 51
Author(s): Aloysius Wong, Chris Gehring, Helen Ruth Irving
Software Mentions: 2
Published: about 11 years ago

10.3390/md17050295

A New Tyrosinase Inhibitor from the Red Alga Symphyocladia latiuscula (Harvey) Yamada (Rhodomelaceae)
Cited by: 23
Author(s): Pradeep Paudel, Aditi Wagle, Su Hui Seong, Hye Jin Park, Hyun Ah Jung, Jae Sue Choi
Software Mentions: 2
Published: about 7 years ago

10.1186/1471-2105-13-334

Protein interface classification by evolutionary analysis
Cited by: 126
Author(s): José M. Duarte, Adam Srebniak, Martin A. Schärer, Guido Capitani
Software Mentions: 2
Published: over 13 years ago

10.3389/fcimb.2017.00411

Structure-Based Prototype Peptides Targeting the Pseudomonas aeruginosa Type VI Secretion System Effector as a Novel Antibacterial Strategy
Cited by: 14
Author(s): Xiaopan Gao, Zhixia Mu, Bo Qin, Yicheng Sun, Sheng Cui
Software Mentions: 2
Published: almost 9 years ago

10.3389/fmicb.2021.632095

Integrated Proteomic and Transcriptomic Analyses Reveal the Roles of Brucella Homolog of BAX Inhibitor 1 in Cell Division and Membrane Homeostasis of Brucella suis S2
Cited by: 2
Author(s): Guangdong Zhang, Fangli Zhong, Lei Chen, Peipei Qin, Junmei Li, Feijie Zhi, Lulu Tian, Dong Zhou, Peng Lin, Huatao Chen, Kai-Fu Tang, Wei Liu, Yaping Jin, Aihua Wang
Software Mentions: 2
Published: over 5 years ago

10.1002/2211-5463.12644

Structural insights into interactions between viral suppressor of <scp>RNA</scp> silencing protein p19 mutants and small <scp>RNA</scp>s
Cited by: 5
Author(s): Dana V. Foss, N.T. Schirle, Ian J. MacRae, John Paul Pezacki
Software Mentions: 2
Published: about 7 years ago

10.1002/2211-5463.12931

High‐resolution crystal structures of the botulinum neurotoxin binding domains from subtypes A5 and A6
Cited by: 4
Author(s): Jonathan Davies, Amy Britton, Sai Man Liu, K. Ravi Acharya
Software Mentions: 2
Published: almost 6 years ago

10.1002/2211-5463.12595

Molecular structure of a 5,10‐methylenetetrahydrofolate dehydrogenase from the silkworm Bombyx mori
Cited by: 4
Author(s): Mohammad Rashedul Haque, Akifumi Higashiura, Atsushi Nakagawa, Aiko Hirowatari, Shigeki Furuya, Kohji Yamamoto
Software Mentions: 2
Published: over 7 years ago

10.1007/s00253-014-6015-x

Biochemical and structural characterization of a thermostable β-glucosidase from Halothermothrix orenii for galacto-oligosaccharide synthesis
Cited by: 57
Author(s): Noor Hassan, Thu Hà Nguyễn, Montira Intanon, Lokesh D. Kori, Bharat K. C. Patel, Dietmar Haltrich, Christina Divne, T.C. Tan
Software Mentions: 2
Published: almost 12 years ago

10.1007/s10858-019-00247-3

Characterization of H/D exchange in type 1 pili by proton-detected solid-state NMR and molecular dynamics simulations
Cited by: 4
Author(s): Songhwan Hwang, Carl Öster, Veniamin Chevelkov, Karin Giller, Adam Lange, Stefan Becker, Adam Lange
Software Mentions: 2
Published: about 7 years ago

10.1111/febs.15601

Angiotensin‐converting enzyme open for business: structural insights into the subdomain dynamics
Cited by: 16
Author(s): Gyles E. Cozier, Lizelle Lubbe, Edward D. Sturrock, K. Ravi Acharya
Software Mentions: 2
Published: over 5 years ago

10.1002/1873-3468.13667

Crystal structure of the catalytic D2 domain of the AAA+ ATPase p97 reveals a putative helical split‐washer‐type mechanism for substrate unfolding
Cited by: 5
Author(s): Lasse Stach, Rhodri M. L. Morgan, Linda Makhlouf, A. Douangamath, F. von Delft, Xiaodong Zhang, Paul S. Freemont
Software Mentions: 2
Published: over 6 years ago

10.1107/S2053230X18012992

Crystal structures and kinetics ofN-acetylneuraminate lyase fromFusobacterium nucleatum
Cited by: 5
Author(s): J. Kumar, Harshvardhan Rao, Vinod Nayak, S. Ramaswamy
Software Mentions: 2
Published: over 7 years ago

10.1016/j.jbc.2021.100995

Solution structures of human myeloma IgG3 antibody reveal extended Fab and Fc regions relative to the other IgG subclasses
Cited by: 8
Author(s): Valentina A. Spiteri, Margaret Goodall, James Doutch, Robert P. Rambo, Jayesh Gor, Stephen J. Perkins
Software Mentions: 2
Published: almost 5 years ago

10.1039/c8fd00013a

Water and hydrophobic gates in ion channels and nanopores
Cited by: 45
Author(s): Shanlin Rao, Charlotte I. Lynch, Gianni Klesse, Georgia E. Oakley, Phillip J. Stansfeld, Stephen J. Tucker, Mark S. P. Sansom
Software Mentions: 2
Published: over 8 years ago

10.12688/f1000research.27676.2

In silico prediction of structure and function for a large family of transmembrane proteins that includes human Tmem41b
Cited by: 6
Author(s): Shahram Mesdaghi, David Murphy, Filomeno Sánchez Rodríguez, José Javier Burgos-Mármol, Daniel J. Rigden
Software Mentions: 2
Published: over 5 years ago

10.1186/1471-2105-13-55

CLIPS-1D: analysis of multiple sequence alignments to deduce for residue-positions a role in catalysis, ligand-binding, or protein structure
Cited by: 13
Author(s): Jan-Oliver Janda, Markus Busch, Fabian Kück, Mikhail Porfenenko, Rainer Merkl
Software Mentions: 2
Published: over 14 years ago

10.1371/journal.pcbi.1006900

Rapid interpretation of small-angle X-ray scattering data
Cited by: 20
Author(s): Marie Weiel, Ines Reinartz, Alexander Schug
Software Mentions: 2
Published: over 7 years ago

10.12688/f1000research.17694.1

Cadmium SAD phasing at CuKα wavelength
Cited by: 1
Author(s): Igor E. Eliseev, Anna Yudenko, V. M. Ukrainskaya, Oleg B. Chakchir
Software Mentions: 2
Published: over 7 years ago

10.1155/2021/8548380

Idebenone-Activating Autophagic Degradation of α-Synuclein via Inhibition of AKT-mTOR Pathway in a SH-SY5Y-A53T Model of Parkinson’s Disease: A Network Pharmacological Approach
Cited by: 7
Author(s): Pei Kun He, Yu Gao, Feng‐Juan Lyu, Jia Ning Chen, Yu Hu Zhang, Kun Nie, Qing Xi Zhang, Rui Huang, Qingling Duan, Man Guo, Zhi Hua Liu, He Huang, Gui Xian, Li Juan Wang
Software Mentions: 2
Published: almost 5 years ago

10.1111/eva.13134

Comparative genomics highlights the importance of drug efflux transporters during evolution of mycoparasitism in Clonostachys subgenus Bionectria (Fungi, Ascomycota, Hypocreales)
Cited by: 15
Author(s): Martin Broberg, Mukesh Dubey, Mudassir Iqbal, Mikael Gudmundssson, Katarina Ihrmark, Hans-Josef Schroers, Dan Funck Jensen, Mikael Brandström Durling, Magnus Karlsson
Software Mentions: 2
Published: almost 6 years ago

10.1186/1472-6750-11-85

Improving Cry8Ka toxin activity towards the cotton boll weevil (Anthonomus grandis)
Cited by: 36
Author(s): Gustavo R. Oliveira, Maria C. M. Silva, Wagner Alexandre Lucena, Erich Yukio Tempel Nakasu, Alexandre Augusto Pereira Firmino, Magda Aparecida Beneventi, Djair S.L. Souza, José Erick Galindo Gomes, José Dijair Antonino, Daniel J. Rigden, H. B. Ramos, Carlos Ricardo Soccol, Maria Fátima Grossi‐de‐Sá
Software Mentions: 2
Published: almost 15 years ago

10.1107/S2059798320008049

Fragment-based determination of a proteinase K structure from MicroED data using ARCIMBOLDO_SHREDDER
Cited by: 12
Author(s): Logan S. Richards, Claudia Millán, Jennifer Miao, Michael W. Martynowycz, M.R. Sawaya, Tamir Gonen, Rafael J. Borges, Isabel Usón, José A. Rodríguez
Software Mentions: 2
Published: almost 6 years ago

10.1186/s13628-018-0048-y

Role of protein interactions in stabilizing canonical DNA features in simulations of DNA in crowded environments
Cited by: 6
Author(s): Aslı Yıldırım, Nathalie Brenner, Robert Sutherland, Michael Feig
Software Mentions: 2
Published: over 7 years ago

10.12688/f1000research.13612.2

Crystal structures of a llama VHH antibody BCD090-M2 targeting human ErbB3 receptor
Cited by: 7
Author(s): Igor E. Eliseev, Anna Yudenko, Vera Vysochinskaya, Anna Svirina, Anna V. Evstratyeva, Maria S. Drozhzhachih, Elena A. Krendeleva, Anna Vladimirova, T.A. Nemankin, Viktoria M. Ekimova, А. Б. Улитин, Maria I. Lomovskaya, Pavel Yakovlev, Anton Bukatin, Nickolay A. Knyazev, Fedor Moiseenko, Oleg B. Chakchir
Software Mentions: 2
Published: about 8 years ago

10.1186/2046-1682-6-10

Molecular basis of HHQ biosynthesis: molecular dynamics simulations, enzyme kinetic and surface plasmon resonance studies
Cited by: 8
Author(s): Anke Steinbach, Christine K. Maurer, Elisabeth Weidel, Claudia Henn, Christian Brengel, Rolf W. Hartmann, Matthias Negri
Software Mentions: 2
Published: almost 13 years ago

10.29219/fnr.v65.7526

The mechanism and candidate compounds of aged citrus peel (chenpi) preventing chronic obstructive pulmonary disease and its progression to lung cancer
Cited by: 15
Author(s): Lin Zhou, Wenwen Gu, Fuguang Kui, Fan Gao, Yuji Niu, Wenwen Li, Yaru Zhang, Lijuan Guo, Junru Wang, Zhenzhen Guo, Gangjun Du
Software Mentions: 2
Published: about 5 years ago

10.1155/2020/4863015

Uncovering the Mechanism of the Effects of Pien-Tze-Huang on Liver Cancer Using Network Pharmacology and Molecular Docking
Cited by: 5
Author(s): Shanghui Liu, Run Wang, Yan Lou, Jia Liu
Software Mentions: 2
Published: almost 6 years ago

10.1155/2020/2396569

Systematically Exploring the Antitumor Mechanisms of Core Chinese Herbs on Hepatocellular Carcinoma: A Computational Study
Cited by: 4
Author(s): Zhulin Wu, Li He, Lianan Wang, Lisheng Peng
Software Mentions: 2
Published: almost 6 years ago

10.1155/2020/1062325

Pharmacological Network Reveals the Active Mechanism of Qi-Replenishing, Spleen-Strengthening, Phlegm-Dispelling, and Blood-Nourishing Fufang on Coronary Heart Disease
Cited by: 2
Author(s): Fan Zhang, Yue Liu, Sicheng Zheng, Boyi Dang, Jianan Wang, Zhe Zhang
Software Mentions: 2
Published: over 5 years ago

10.1038/s41431-020-00728-2

NAA10 p.(N101K) disrupts N-terminal acetyltransferase complex NatA and is associated with developmental delay and hemihypertrophy
Cited by: 6
Author(s): Nina McTiernan, Harinder Gill, Carlos E. Prada, Harry Pachajoa, Juliana Lores, Causes Study, Thomas Arnesen
Software Mentions: 2
Published: almost 6 years ago

10.1111/1462-2920.13036

Closing the gaps on the viral photosystem‐ <scp>I</scp> psa <scp>DCAB</scp> gene organization
Cited by: 7
Author(s): Sheila Roitman, José Flores‐Uribe, Alon Philosof, Ben Knowles, Forest Rohwer, J. Cesar Ignacio‐Espinoza, Matthew B. Sullivan, Francisco M. Cornejo‐Castillo, Pablo Sánchez, Silvia G. Acinas, Chris L. Dupont, Oded Béjà
Software Mentions: 2
Published: over 10 years ago

10.1016/j.ejmech.2018.04.035

Aminobenzothiazole derivatives stabilize the thermolabile p53 cancer mutant Y220C and show anticancer activity in p53-Y220C cell lines
Cited by: 52
Author(s): Matthias G. J. Baud, Matthias R. Bauer, Lorena Verduci, Felix A. Dingler, Ketan Patel, Debmalya Roy, A.C. Joerger, Alan R. Fersht
Software Mentions: 2
Published: about 8 years ago

10.1155/2020/7151634

Deciphering the Molecular Targets and Mechanisms of HGWD in the Treatment of Rheumatoid Arthritis via Network Pharmacology and Molecular Docking
Cited by: 21
Author(s): Wei Liu, Yihua Fan, Chunying Tian, Yue Jin, Shaopeng Du, Ping Zeng, Aihua Wang
Software Mentions: 2
Published: almost 6 years ago

10.1080/22221751.2019.1707716

Structural characterization of glycinamide-RNase-transformylase T from Mycobacterium tuberculosis
Cited by: 1
Author(s): Chuanbo Cong, Zuliang Liu, Liguo Liu, Jianmin Wang, Qi Jin
Software Mentions: 2
Published: over 6 years ago

10.1080/22221751.2020.1781551

Virus strain from a mild COVID-19 patient in Hangzhou represents a new trend in SARS-CoV-2 evolution potentially related to Furin cleavage site
Cited by: 40
Author(s): Xi Jin, Kangli Xu, Penglei Jiang, Jiangshan Lian, Shaorui Hao, Hang‐Ping Yao, Hongyu Jia, Yimin Zhang, Lin Zheng, Nuoheng zheng, Dong Chen, Jinmei Yao, Jianhua Hu, Gao J, Liang Wen, Jian Shen, Yue Ren, Guodong Yu, Xiaoyan Wang, Yingfeng Lu, Xiaopeng Yu, Liang Yu, Da‐Xiong Xiang, Nanping Wu, Xiangyun Lu, Linfang Cheng, Fumin Liu, Haibo Wu, Changzhong Jin, Xiaofeng Yang, Pengxu Qian, Yunqing Qiu, Jifang Sheng, Tingbo Liang, Lanjuan Li, Yida Yang
Software Mentions: 2
Published: over 6 years ago

10.1186/s12934-020-01500-3

Improved production of germacrene A, a direct precursor of ß-elemene, in engineered Saccharomyces cerevisiae by expressing a cyanobacterial germacrene A synthase
Cited by: 18
Author(s): Weixin Zhang, Junqi Guo, Zheng Wang, Yanwei Li, Xiangfeng Meng, Yu Shen, Weifeng Liu
Software Mentions: 2
Published: over 5 years ago

10.1080/22221751.2021.1899770

The preclinical inhibitor GS441524 in combination with GC376 efficaciously inhibited the proliferation of SARS-CoV-2 in the mouse respiratory tract
Cited by: 33
Author(s): Yuejun Shi, Lei Shuai, Zhiyuan Wen, Chong Wang, Yuanyuan Yan, Zhe Jiao, Fenglin Guo, Zhen F. Fu, Huanchun Chen, Zhigao Bu, Guiqing Peng
Software Mentions: 2
Published: over 5 years ago

10.3390/biom11050642

The ‘Shape-Shifter’ Peptide from the Disulphide Isomerase PmScsC Shows Context-Dependent Conformational Preferences
Cited by: 1
Author(s): Lorna J. Smith, Chloe W. Green, Christina Redfield
Software Mentions: 2
Published: about 5 years ago

10.1186/1471-2091-12-12

The Peroxisomal Targeting Signal 1 in sterol carrier protein 2 is autonomous and essential for receptor recognition
Cited by: 9
Author(s): Chris Williams, Nicole Schueller, Colin A. Thompson, Marlene van den Berg, Simon D. van Haren, Ralf Erdmann, Charles S. Bond, Ben Distel, Wolfgang Schliebs, Matthias Wilmanns, Will A. Stanley
Software Mentions: 2
Published: over 15 years ago

10.3390/biom10040615

Insight into the RssB-Mediated Recognition and Delivery of σs to the AAA+ Protease, ClpXP
Cited by: 10
Author(s): Dimce Micevski, Kornelius Zeth, Terrence D. Mulhern, Verena J. Schuenemann, Jessica E. Zammit, Kaye N. Truscott, David A. Dougan
Software Mentions: 2
Published: about 6 years ago

10.1107/S2059798316016910

Strategies for carbohydrate model building, refinement and validation
Cited by: 45
Author(s): Jon Agirre
Software Mentions: 2
Published: over 9 years ago

10.1002/ece3.7582

The complete mitogenome of Phymorhynchus sp. (Neogastropoda, Conoidea, Raphitomidae) provides insights into the deep‐sea adaptive evolution of Conoidea
Cited by: 7
Author(s): Mei Yang, Dong Dong, Xinzheng Li
Software Mentions: 2
Published: about 5 years ago

10.26508/lsa.202000873

A conserved PI(4,5)P2–binding domain is critical for immune regulatory function of DOCK8
Cited by: 8
Author(s): Tetsuya Sakurai, Mutsuko Kukimoto-Niino, Kazufumi Kunimura, Nana Yamane, Daiji Sakata, Ryosuke Aihara, Tomoharu Yasuda, Shigeyuki Yokoyama, Mikako Shirouzu, Yoshihiro Fukui, Takehito Uruno
Software Mentions: 2
Published: over 5 years ago

10.1186/1471-2105-7-14

Local protein structure prediction using discriminative models
Cited by: 64
Author(s): Oliver Sander, Iris E. Sommer, Thomas Lengauer
Software Mentions: 2
Published: over 20 years ago

10.3390/biom10040660

Structure of the ALS Mutation Target Annexin A11 Reveals a Stabilising N-Terminal Segment
Cited by: 8
Author(s): Peder August Gudmundsen Lillebostad, Arne Raasakka, Silje Hjellbrekke, Sudarshan Patil, Trude Røstbø, Hanne Hollås, Siri Aastedatter Sakya, Peter D. Szigetvari, Anni Vedeler, Petri Kursula
Software Mentions: 2
Published: about 6 years ago

10.1002/ece3.52

Regulatory versus coding signatures of natural selection in a candidate gene involved in the adaptive divergence of whitefish species pairs ( Coregonus spp.)
Cited by: 15
Author(s): Julie Jeukens, Louis Bernatchez
Software Mentions: 2
Published: over 14 years ago

10.1289/ehp.1306902

Mimicking of Estradiol Binding by Flame Retardants and Their Metabolites: A Crystallographic Analysis
Cited by: 79
Author(s): R.A. Gosavi, Gabriel A. Knudsen, Linda S. Birnbaum, Lars C. Pedersen
Software Mentions: 2
Published: almost 13 years ago

10.1155/2020/9145626

Methanolic Bark Extract of Abroma augusta (L.) Induces Apoptosis in EAC Cells through Altered Expression of Apoptosis Regulatory Genes
Cited by: 7
Author(s): Masum Miah, Ajmeri Sultana Shimu, Shafi Mahmud, Farjana-Binta Omar, Ratna Khatun, Sumon Chandro Mohanto, Kazi Md. Faisal Hoque, Abu Reza
Software Mentions: 2
Published: about 6 years ago

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Papers Mentioning PyMOL 8,266