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Clustering of disulfide-rich peptides provides scaffolds for hit discovery by phage display: application to interleukin-23

David T. Barkan, Xiao-li Cheng, Herodion Celino, Tran T. Tran, Ashok Bhandari, Charles S. Craik, Andrej Sali, Mark L. Smythe
2016 BMC Bioinformatics  
To demonstrate the utility of the clusters, phage libraries were constructed for three of the representative scaffolds and panned against interleukin-23.  ...  Only 20 peptide scaffolds accounted for most of the natural DRP structural diversity, providing suitable starting points for seeding phage display experiments.  ...  Acknowledgements The authors wish to acknowledge Ben Webb for assistance with MODELLER and Praveen Madala for thoughtful discussions.  ... 
doi:10.1186/s12859-016-1350-9 pmid:27881076 pmcid:PMC5120537 fatcat:jloxdqcsgfdzdgdmer7x2opnq4

Protein-Catalyzed Capture Agents

Heather D. Agnew, Matthew B. Coppock, Matthew N. Idso, Bert T. Lai, JingXin Liang, Amy M. McCarthy-Torrens, Carmen M. Warren, James R. Heath
2019 Chemical Reviews  
The development of epitope-targeted PCCs was motivated by the desire to fully generalize pioneering work from the Sharpless and Finn groups in which in situ click screens were used to develop potent, divalent  ...  We provide a historical context for PCCs and place them within the broader scope of biological and synthetic aptamers.  ...  phage display technologies. 135 Unlike later PCC macrocycles, this anchor was cyclized by a disulfide bridge between two cysteine residues.  ... 
doi:10.1021/acs.chemrev.8b00660 pmid:30838853 pmcid:PMC6731165 fatcat:c7pnvrw4arbo3gfn2ihumz7fvi

TLR4-Targeting Therapeutics: Structural Basis and Computer-Aided Drug Discovery Approaches

Qurat ul Ain, Maria Batool, Sangdun Choi
2020 Molecules  
employed by pharmaceutical companies and academic researchers for the development of pharmacologically active drugs.  ...  Furthermore, this article provides an overview of the computational methods that can benefit a broad audience in this field and help with the development of novel drugs for TLR-related disorders.  ...  through phage display.  ... 
doi:10.3390/molecules25030627 pmid:32023919 pmcid:PMC7037830 fatcat:faw3prwk5fb27gbjdxyw4isdbm

Computer applications for prediction of protein–protein interactions and rational drug design

Juan Fernandez-Recio
2009 Advances and Applications in Bioinformatics and Chemistry  
for computational proteomics.  ...  In recent years, protein-protein interactions are becoming the object of increasing attention in many different fields, such as structural biology, molecular biology, systems biology, and drug discovery  ...  Discovery of PPi agonists/antagonists: experimental approaches Phage-display selection of peptides Phage display has been used to probe hot-spots as well as to identify novel peptide agonist/antagonists  ... 
doi:10.2147/aabc.s6272 fatcat:ib3ynmetnvg5jhywiqbzw27thi

Computer applications for prediction of protein-protein interactions and rational drug design

Solène Grosdidier, Max Totrov, Juan Fernández-Recio
2009 Advances and Applications in Bioinformatics and Chemistry  
for computational proteomics.  ...  In recent years, protein-protein interactions are becoming the object of increasing attention in many different fields, such as structural biology, molecular biology, systems biology, and drug discovery  ...  Discovery of PPi agonists/antagonists: experimental approaches Phage-display selection of peptides Phage display has been used to probe hot-spots as well as to identify novel peptide agonist/antagonists  ... 
pmid:21918619 pmcid:PMC3169948 fatcat:54u2fw4ma5csdcqftwypntgage

IBC's 22nd Annual Antibody Engineering and 9th Annual Antibody Therapeutics International Conferences and the 2011 Annual Meeting of The Antibody Society, December 5–8, 2011, San Diego, CA

Johan Nilvebrant, D. Cameron Dunlop, Aroop Sircar, Thierry Wurch, Emilia Falkowska, Janice M. Reichert, Gustavo Helguera, Emily C. Piccione, Simon Brack, Sven Berger
2012 mAbs  
of subtiligase by a combination of phage and yeast display.  ...  The resulting antigens may be used for antibody generation by hybridoma technology or for screening of phage display libraries.  ...  10G11) were used for the construction of several DVD-Ig molecules, by swapping the orientation of IL-1α and IL-1β-specific VH/VL domains, and using different linker lengths. 11 The selected isotype  ... 
doi:10.4161/mabs.4.2.19495 pmid:22453091 pmcid:PMC3361653 fatcat:gntlkfumg5c7tg4bi4gyc4vwty

Antibody Engineering and Therapeutics

Juan Carlos Almagro, Gary L Gilliland, Felix Breden, Jamie K Scott, Devin Sok, Matthias Pauthner, Janice M Reichert, Gustavo Helguera, Raiees Andrabi, Robert Mabry, Mathieu Bléry, James E Voss (+12 others)
2014 mAbs  
Eleven unpublished, high-resolution x-ray Fab crystal structures (provided by investigators at Janssen R&D, LLC and The Scripps Research Institute) from diverse species and covering a wide range of antigen-binding  ...  The workshop aimed to address this question by presenting and discussing the results of the second 3D Antibody Modeling Assessment (AMA-II).  ...  Osbourn (MedImmune) discussed the discovery of adalimumab (Humira®) using the phage display system at Cambridge Antibody Technology in the 1990s.  ... 
doi:10.4161/mabs.28421 pmid:24589717 pmcid:PMC4011904 fatcat:ga63frfoina7jh2ekkzoo4xunm

PDZ Domains as Drug Targets

Nikolaj R. Christensen, Jelena Čalyševa, Eduardo F. A. Fernandes, Susanne Lüchow, Louise S. Clemmensen, Linda M. Haugaard‐Kedström, Kristian Strømgaard
2019 Advanced Therapeutics  
An overview of potential new therapeutic interventions in PDZ-mediated protein networks is also provided.  ...  In this review, the authors describe structural and genetic aspects of PDZ-containing proteins and discuss the current status of the development of small-molecule and peptide modulators of PDZ domains.  ...  [226] Phage display has also been used to identify peptide-based inhibitors for Dvl.  ... 
doi:10.1002/adtp.201800143 pmid:32313833 pmcid:PMC7161847 fatcat:o42un72gkzgffleesyh2cljmni

Recent trends in protein and peptide-based biomaterials for advanced drug delivery

Anastasia Varanko, Soumen Saha, Ashutosh Chilkoti
2020 Advanced Drug Delivery Reviews  
Acknowledgements A.V. and S.S. contributed equally to this work. A.V. acknowledges the support of the NSF through a graduate research fellowship. References [1]  ...  In contrast to other salt-leached silk scaffolds, the swelling behaviors of these scaffolds as measured by Discovery V20 stereomicroscope were low, and the mechanical properties were suitable for soft  ...  While this hydrogel was primarily engineered J o u r n a l P r e -p r o o f for tissue engineering applications, it provides an example of how peptides can be appended to the RLP sequence for other biomedical  ... 
doi:10.1016/j.addr.2020.08.008 pmid:32871201 pmcid:PMC7456198 fatcat:g2saqupm6fcalne6rbj4glzrm4

The 28th Annual Symposium of The Protein Society: Program & Abstracts

2014 Protein Science  
An advantage of cell surface display over other systems such as phage display is the possibility to use flow-cytometric cell sorting.  ...  These disulfide-bonded Lsm clusters are readily disengaged by a reducing step.  ...  designed, synthetized, purified and characterized by our team 1 .  ... 
doi:10.1002/pro.2504 pmid:25043257 pmcid:PMC4116645 fatcat:yjhug3aif5futn3icovvrkgebm

Abstracts of the 29th Annual Symposium of The Protein Society

2015 Protein Science  
Nonetheless, our approach clearly demonstrates the ability of biological systems to produce advanced, functional nanomaterials, and provides a template for engineering biological systems to high-value  ...  Here, we engineer a yeast strain for the production of medium chain fatty acids by screening different thioesterases.  ...  This mechanism also leads, for example, to the spread of antibiotic resistance genes and virulence factors among bacterial species.  ... 
doi:10.1002/pro.2823 pmid:26452528 pmcid:PMC4632850 fatcat:ejmksoqj3zbsrkabl4jyp7emgi

Award Winners and Abstracts of the 31st Annual Symposium of The Protein Society, Montreal, Canada, July 24-27, 2017

2017 Protein Science  
Grouping by Topics Pages  ...  In the present study, we aimed to improve the ExM method for imaging of proteins in human clinical tissue samples, for diagnostic pathology and research.  ...  ExPath enables morphological and protein imaging and analysis of tissue microarrays, by providing $70nm resolution imaging of proteins in any type of human tissues, using optical microscopes (currently  ... 
doi:10.1002/pro.3349 pmid:29280217 fatcat:jrxtwzblare37gxsvc5szbwuhu

Peptide Vaccines for Cancer [chapter]

Esteban Celis
2011 Encyclopedia of Cancer  
The affinity selection of peptides and antibodies for diagnostic and therapeutic purposes are today the most widely used and commercially most successful applications of phage display libraries.  ...  Phage display technology offers a potential tool for developing anticancer agents for both therapeutic and diagnostic applications.  ...  According to the result of the phase III trials, Sipuleucel-T administration was well tolerated and provided a modest but real survival advantage to patients, as the overall survival was extended by 4.1  ... 
doi:10.1007/978-3-642-16483-5_4441 fatcat:g5gzz7mzanbb7el5lc6adyh5fy

Plasminogen-Activating System [chapter]

Salvatore Ulisse, Massimino D'Armiento, Sarah Bocchini, Enke Baldini
2011 Encyclopedia of Cancer  
The affinity selection of peptides and antibodies for diagnostic and therapeutic purposes are today the most widely used and commercially most successful applications of phage display libraries.  ...  Phage display technology offers a potential tool for developing anticancer agents for both therapeutic and diagnostic applications.  ...  According to the result of the phase III trials, Sipuleucel-T administration was well tolerated and provided a modest but real survival advantage to patients, as the overall survival was extended by 4.1  ... 
doi:10.1007/978-3-642-16483-5_4605 fatcat:keaft6ozlbclvnkyzcgrvcvud4

Particle-induced Cancer [chapter]

Steffen Loft, Hakan Wallin, Anne Thoustrup Saber, Ulla Vogel
2011 Encyclopedia of Cancer  
The affinity selection of peptides and antibodies for diagnostic and therapeutic purposes are today the most widely used and commercially most successful applications of phage display libraries.  ...  Phage display technology offers a potential tool for developing anticancer agents for both therapeutic and diagnostic applications.  ...  According to the result of the phase III trials, Sipuleucel-T administration was well tolerated and provided a modest but real survival advantage to patients, as the overall survival was extended by 4.1  ... 
doi:10.1007/978-3-642-16483-5_4396 fatcat:guepwtopobdgbiqi23os5zaely
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