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Mapping discontinuous antibody epitopes to reveal protein structure and changes in structure related to function

B. Mumey, T. Angel, B. Kirkpatrick, B. Bailey, P. Hargrave, A. Jesaitis, E. Dratz
<i title="IEEE Comput. Soc"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/vt2vr2w2rfdp5gft37lygug6ha" style="color: black;">Computational Systems Bioinformatics. CSB2003. Proceedings of the 2003 IEEE Bioinformatics Conference. CSB2003</a> </i> &nbsp;
The Antibody Imprinting method seeks to rapidly and efficiently "mine" the antibody epitope information to reveal the structure of the target proteins.  ...  The method, called Antibody Imprinting, uses antibodies against target proteins and random peptide probe libraries to map the epitopes of antibody binding sites on target proteins.  ...  The method, called Antibody Imprinting, uses antibodies against target proteins and random peptide probe libraries to map the epitopes of antibody binding sites on target proteins [1] .  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1109/csb.2003.1227415">doi:10.1109/csb.2003.1227415</a> <a target="_blank" rel="external noopener" href="https://dblp.org/rec/conf/csb/MumeyAKBHJD03.html">dblp:conf/csb/MumeyAKBHJD03</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/seamxdlc4ndzjnjzrwbejjpwnm">fatcat:seamxdlc4ndzjnjzrwbejjpwnm</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20040719071456/http://csdl.computer.org:80/comp/proceedings/csb/2003/2000/00/20000585.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/c2/fe/c2feb0eaa9767c17ce63e1f13c621d9978e8d38d.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1109/csb.2003.1227415"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> ieee.com </button> </a>

A New Method for Mapping Discontinuous Antibody Epitopes to Reveal Structural Features of Proteins

Brendan M. Mumey, Brian W. Bailey, Bonnie Kirkpatrick, Algirdas J. Jesaitis, Thomas Angel, Edward A. Dratz
<span title="">2003</span> <i title="Mary Ann Liebert Inc"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/id6xbd2o6fhy7pts2djgwhtmvy" style="color: black;">Journal of Computational Biology</a> </i> &nbsp;
in complex spatial patterns to create the native protein structure.  ...  This paper presents a new method to align these antibody epitopes to discontinuous regions of the one-dimensional amino acid sequence of a target protein.  ...  antibodies.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1089/10665270360688183">doi:10.1089/10665270360688183</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/12935344">pmid:12935344</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/pxybraomvze33c3nfqn2pjiyfm">fatcat:pxybraomvze33c3nfqn2pjiyfm</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20060901091625/http://www.chemistry.montana.edu/dratz/J_Comb_Biol_MumeyReprint.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/39/ba/39ba0cc6b767b79d8309a1d158c31ce9a97f9f54.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1089/10665270360688183"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a>

Unravelling viral camouflage: approaches to the study and characterization of conformational epitopes

T. AUGUSTIN, O. CEHLAR, R. SKRABANA, P. MAJEROVA, J. HANES
<span title="">2015</span> <i title="AEPress, s.r.o."> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/sejqkxwgynbwfluozjcec33fdm" style="color: black;">Acta virologica</a> </i> &nbsp;
be exploited in designing new vaccines and virus neutralizing antibodies.  ...  Characterization of interactions of antibodies with prevalently conformational viral epitopes is important for understanding antibody mode of action and can help to identify conserved regions that may  ...  This work was supported by Axon Neuroscience and Research grants LPP-0038-09, VEGA 2/0177/15, 2/0163/13 and APVV 0200-11.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.4149/av_2015_02_103">doi:10.4149/av_2015_02_103</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/nbrdxoikv5eubftw6wmvbne7ju">fatcat:nbrdxoikv5eubftw6wmvbne7ju</a> </span>
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Conservancy of mAb Epitopes in Ebolavirus Glycoproteins of Previous and 2014 Outbreaks

Julia Ponomarenko, Kerrie Vaughan, Alessandro Sette, Sebastian Maurer-Stroh
<span title="2014-11-03">2014</span> <i title="Public Library of Science (PLoS)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/5m3rbc3xcbhr5ds7r7hpk62yme" style="color: black;">PLOS Currents</a> </i> &nbsp;
with only one immunodominant epitope of mAb 13F6-1-2 acquiring two novel mutations in the 2014 outbreak that might potentially change the antibody specificity and neutralization activity.  ...  We analyzed sequence and structural conservation of the Ebolavirus glycoprotein (GP) epitopes for all experimentally identified protective mAbs published to date.  ...  Fig. 1 : 1 Functional EBOV-related mAb epitopes reported in the IEDB. Fig. 1 : 1 Functional EBOV-related mAb epitopes reported in the IEDB.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1371/currents.outbreaks.f1a7028a13ce1c5f0bdbb4b0cc0b919b">doi:10.1371/currents.outbreaks.f1a7028a13ce1c5f0bdbb4b0cc0b919b</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/25642381">pmid:25642381</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4234462/">pmcid:PMC4234462</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/2se752gb4vairnj2454xyrt6ia">fatcat:2se752gb4vairnj2454xyrt6ia</a> </span>
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Relevant B Cell Epitopes in Allergic Disease

Anna Pomés
<span title="">2010</span> <i title="S. Karger AG"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/t2hrxsjiprd3nargo3nm7wuyxi" style="color: black;">International Archives of Allergy and Immunology</a> </i> &nbsp;
Knowledge of the molecular structure of allergens alone and in complex with antibodies that interfere with IgE antibody binding is important to understand the immune recognition of B cell-antigenic determinants  ...  The 3-dimensional structure of an allergen defines the accessible parts on the surface of the molecule or epitopes that interact with antibodies.  ...  Alex Wlodawer and Mi Li at the National Cancer Institute for the collaborative structural studies on the cockroach allergen Bla g 2, and Dr. Martin Chapman for his support.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1159/000260078">doi:10.1159/000260078</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/19940500">pmid:19940500</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC2956005/">pmcid:PMC2956005</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/n2c4zxrmbrcdnbo464gk26efwi">fatcat:n2c4zxrmbrcdnbo464gk26efwi</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190220002336/http://pdfs.semanticscholar.org/2129/c94deddd5702bc55adf8423695dac90e20c0.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/21/29/2129c94deddd5702bc55adf8423695dac90e20c0.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1159/000260078"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> Publisher / doi.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2956005" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

In This Issue

<span title="">2014</span> <i title="Elsevier BV"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/y4oayrlrkfebxgzkm3rrzcps2m" style="color: black;">Structure</a> </i> &nbsp;
Lumme et al. show that transitions of the Toc34 dimer from a tight GDP-to a flexible GTP-loaded state and the substrate-induced dimer opening are key events that regulate preprotein recognition and translocation  ...  Dimeric Toc34, a GAD-type GTPase, participates in the regulation of chloroplast preprotein import.  ...  Sela-Culang et al. develop a method to identify discontinuous epitopes on an antigen if sequence of the cognate antibody is known.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.str.2014.03.008">doi:10.1016/j.str.2014.03.008</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/e75f3xpq4fbrhks3mr5y4ccnh4">fatcat:e75f3xpq4fbrhks3mr5y4ccnh4</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190314040637/https://core.ac.uk/download/pdf/82140039.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/49/d6/49d6ad3f48a6cba608fd7ec8723dc4fc236afad2.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.str.2014.03.008"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> elsevier.com </button> </a>

Antigenic and Mutational Analyses of Herpes Simplex Virus Glycoprotein B Reveal Four Functional Regions

F. C. Bender, M. Samanta, E. E. Heldwein, M. P. de Leon, E. Bilman, H. Lou, J. C. Whitbeck, R. J. Eisenberg, G. H. Cohen
<span title="2007-01-31">2007</span> <i title="American Society for Microbiology"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/w3gj5mynrnbtndalcc5jnhymym" style="color: black;">Journal of Virology</a> </i> &nbsp;
To organize gB into functional regions within these domains, we localized the epitopes recognized by the entire panel of MAbs and mapped them onto the crystal structure of gB.  ...  Most of the MAbs were directed to continuous or discontinuous epitopes, but several recognized discontinuous epitopes that showed some resistance to denaturation, and we refer to them as pseudo-continuous  ...  We thank Becton, Dickinson and Company for their cooperation in supplying hybridomas, which were critical in this work. We are grateful to L. Pereira, J. Glorioso, P. Spear, and F.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1128/jvi.02710-06">doi:10.1128/jvi.02710-06</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/17267495">pmid:17267495</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC1866100/">pmcid:PMC1866100</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/goybrxyokzfw7ocoxomd2si2iy">fatcat:goybrxyokzfw7ocoxomd2si2iy</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190501145010/https://jvi.asm.org/content/jvi/81/8/3827.full.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/cb/2c/cb2c9999c0536bc9641ddee9eca78e8dd961b2bd.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1128/jvi.02710-06"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> asm.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1866100" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Predicting Interaction Sites from the Energetics of Isolated Proteins: A New Approach to Epitope Mapping

Guido Scarabelli, Giulia Morra, Giorgio Colombo
<span title="">2010</span> <i title="Elsevier BV"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/dez2wau7t5aqvklzwrcsreuwq4" style="color: black;">Biophysical Journal</a> </i> &nbsp;
The antibody-binding properties of an antigen depend on its structure and related dynamics.  ...  , low-intensity energetic interaction networks in the protein structure isolated in solution.  ...  Most neutralizing epitopes in antibody-mediated responses are discontinuous.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/j.bpj.2010.01.014">doi:10.1016/j.bpj.2010.01.014</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/20441761">pmid:20441761</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC2862194/">pmcid:PMC2862194</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/wxxkaobzbrckfon5chpmx73yxu">fatcat:wxxkaobzbrckfon5chpmx73yxu</a> </span>
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Analysis of Human RSV Immunity at the Molecular Level: Learning from the Past and Present

Kerrie Vaughan, Julia Ponomarenko, Bjoern Peters, Alessandro Sette, Steven M. Varga
<span title="2015-05-22">2015</span> <i title="Public Library of Science (PLoS)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/s3gm7274mfe6fcs7e3jterqlri" style="color: black;">PLoS ONE</a> </i> &nbsp;
These interpretations are in agreement with previous work and can be applied in the larger context of functional epitopes on the F protein.  ...  A structural analysis of the major surface antigen, F, showed that the majority of epitopes defined for functional antibodies (neutralizing and/or protective) were either shown to bind pre-F or to be accessible  ...  Graham and Jason S. McLellan in reviewing this manuscript. This work was supported by NIAID contract number HHSN272201200010C.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1371/journal.pone.0127108">doi:10.1371/journal.pone.0127108</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/26001197">pmid:26001197</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4441423/">pmcid:PMC4441423</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/vwhu6ebig5bnxmiezvgiljs56a">fatcat:vwhu6ebig5bnxmiezvgiljs56a</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20171010212321/http://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0127108&amp;type=printable" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/68/f7/68f7ef4a16e20858654fe0cf3a9fa6ed2db189cb.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1371/journal.pone.0127108"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> plos.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4441423" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

A Meta-Analysis of the Existing Knowledge of Immunoreactivity against Hepatitis C Virus (HCV)

Yohan Kim, Kerrie Vaughan, Jason Greenbaum, Bjoern Peters, Mansun Law, Alessandro Sette, Eui-Cheol Shin
<span title="2012-05-31">2012</span> <i title="Public Library of Science (PLoS)"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/s3gm7274mfe6fcs7e3jterqlri" style="color: black;">PLoS ONE</a> </i> &nbsp;
Analysis of all HCV-related epitope hosted in the Immune Epitope Database (IEDB), a repository of freely accessible immune epitope data, revealed more than 1500 and 1900 distinct T cell and antibody epitopes  ...  Almost 400 different scientific reports present immunological data related to T cell and antibody epitopes derived from HCV literature.  ...  Acknowledgments We gratefully acknowledge the helpful contribution of Alison Deckhut, Andrea Cox, Barbara Rehermann, Howard Grey, and Steven Foung in reviewing this manuscript. Author Contributions  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1371/journal.pone.0038028">doi:10.1371/journal.pone.0038028</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/22675428">pmid:22675428</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC3364976/">pmcid:PMC3364976</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/aw2dseisbjdrdendijputngfqi">fatcat:aw2dseisbjdrdendijputngfqi</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20171003231207/http://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0038028&amp;type=printable" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/8c/ca/8ccac3fc846e7e24120a9d2c54a8893eb6783c62.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1371/journal.pone.0038028"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> plos.org </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3364976" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Structural and Computational Biology in the Design of Immunogenic Vaccine Antigens

Lassi Liljeroos, Enrico Malito, Ilaria Ferlenghi, Matthew James Bottomley
<span title="">2015</span> <i title="Hindawi Limited"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/zoib754emjcgnidat5lp7otb4i" style="color: black;">Journal of Immunology Research</a> </i> &nbsp;
Secondly, major advances in structural biology, experimental epitope mapping, and computational epitope prediction have yielded molecular insights into the immunogenic determinants defining protective  ...  However, over the last 10–20 years, several important technological and computational advances have enabled major progress in the discovery and design of potently immunogenic recombinant protein vaccine  ...  Acknowledgments The authors thank Maria Scarselli for critical reading of the paper and constructive comments and Alessandro Muzzi for helpful discussion.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1155/2015/156241">doi:10.1155/2015/156241</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/26526043">pmid:26526043</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4615220/">pmcid:PMC4615220</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/eted4wm54nf2fakljjztbd4fqe">fatcat:eted4wm54nf2fakljjztbd4fqe</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20190219173650/http://pdfs.semanticscholar.org/1899/ebe25db14f2a24b429a09570be02359d25c6.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/18/99/1899ebe25db14f2a24b429a09570be02359d25c6.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1155/2015/156241"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> hindawi.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4615220" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Structure–function relationships of HIV-1 envelope sequence-variable regions refocus vaccine design

Susan Zolla-Pazner, Timothy Cardozo
<span title="">2010</span> <i title="Springer Nature"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/eelfs4w3x5gbrp2exm7msxfbhe" style="color: black;">Nature reviews. Immunology</a> </i> &nbsp;
Acknowledgements We are grateful to D. Almond and J. Swetnam for assistance in preparing the figures and to C. Hioe, M. Totrov and X.-P.  ...  Kong for contributing ideas to and helping to shape this article, which includes studies supported by grants from the Bill and Melinda Gates Foundation, the US National Institutes of Health (grants HL59725  ...  activity seemed to map to a discontinuous epitope formed by V2 and V3 present on the Env spikes of the virus 89 . similar antibodies were found in an HIVinfected chimpanzee 90, 91 .  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1038/nri2801">doi:10.1038/nri2801</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/20577269">pmid:20577269</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC3167078/">pmcid:PMC3167078</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/5cqa6y2v7vfwjbt6hbqimydk3q">fatcat:5cqa6y2v7vfwjbt6hbqimydk3q</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20210718163218/https://www.nature.com/articles/nri2801.pdf?error=cookies_not_supported&amp;code=ca94e9bc-f7d4-48d7-af62-d22df8379359" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/b0/24/b024b2b1bbca2e3915908f9e47c19c2f95c22475.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1038/nri2801"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> nature.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3167078" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Genetic Diversity Underlying the Envelope Glycoproteins of Hepatitis C Virus: Structural and Functional Consequences and the Implications for Vaccine Design

Alexander Tarr, Tanvi Khera, Kathrin Hueging, Julie Sheldon, Eike Steinmann, Thomas Pietschmann, Richard Brown
<span title="2015-07-17">2015</span> <i title="MDPI AG"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/ockrmqzwdnfq3b4pukv44pnfgu" style="color: black;">Viruses</a> </i> &nbsp;
Early evidence suggested that the structure of the E2 protein was analogous to the Class II fusion proteins found in all other flaviviruses [37], while E1 was also predicted to have regions functionally  ...  Here we review current knowledge of HCV envelope protein structure, integrating knowledge of genetic, antigenic and functional diversity to inform rational immunogen design.  ...  By comparison to related members of the Flaviviridae family these proteins are thought to a conserved face possessing epitopes of broadly neutralizing antibodies [42] .  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.3390/v7072809">doi:10.3390/v7072809</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/26193307">pmid:26193307</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC4517138/">pmcid:PMC4517138</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/lv5ncm7jwrcsjcoxjxzk6r6hea">fatcat:lv5ncm7jwrcsjcoxjxzk6r6hea</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20150926121957/http://www.mdpi.com/1999-4915/7/7/2809/pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/cd/b2/cdb2accf3c0e442ed97fa76e666e0bba2290e2df.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.3390/v7072809"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="unlock alternate icon" style="background-color: #fb971f;"></i> mdpi.com </button> </a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4517138" title="pubmed link"> <button class="ui compact blue labeled icon button serp-button"> <i class="file alternate outline icon"></i> pubmed.gov </button> </a>

Evidence for conformationally different states of interleukin-10: binding of a neutralizing antibody enhances accessibility of a hidden epitope

Ulrich Reineke, Jens Schneider-Mergener, Ralf W. Glaser, Rolf-Dietrich Stigler, Martina Seifert, Hans-Dieter Volk, Robert Sabat
<span title="">1999</span> <i title="Wiley"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/lml5dbm4jnfmjitqk6yu3nrfd4" style="color: black;">Journal of Molecular Recognition</a> </i> &nbsp;
., Weath- erbee, J. and Wlodawer, A. (1995) Crystal structure of interleukin-10 reveals the functional dimer with an unex- pected topological similarity to interferon ». Structure 3, 591- 601.  ...  In this study we mapped the epitopes of two neutralizing antibodies cooperatively binding to IL-10.  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1002/(sici)1099-1352(199907/08)12:4&lt;242::aid-jmr461&gt;3.0.co;2-1">doi:10.1002/(sici)1099-1352(199907/08)12:4&lt;242::aid-jmr461&gt;3.0.co;2-1</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/10440995">pmid:10440995</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/f2bmllvl2zfvpdvvvay4szun2a">fatcat:f2bmllvl2zfvpdvvvay4szun2a</a> </span>
<a target="_blank" rel="noopener" href="https://archive.org/details/sim_journal-of-molecular-recognition-jmr_july-august-1999_12_4/page/242" title="read fulltext microfilm" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Archive [Microfilm] <div class="menu fulltext-thumbnail"> <img src="https://archive.org/serve/sim_journal-of-molecular-recognition-jmr_july-august-1999_12_4/__ia_thumb.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1002/(sici)1099-1352(199907/08)12:4&lt;242::aid-jmr461&gt;3.0.co;2-1"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> wiley.com </button> </a>

Synthetic peptide vaccines and the prediction of epitopes in proteins

Marc H.V. Van Regenmortel
<span title="">1986</span> <i title="Elsevier BV"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/frmht733vbc7bbqw3eba3eqc2u" style="color: black;">Clinical Immunology Newsletter</a> </i> &nbsp;
that an operational bias is introduced when monoclonal antibodies are used to characterize epitopes and, 4) a tendency to underestimate the difference between antigenicity and immunogenicity.  ...  Reasons for this lack of success include 1) an excessive reliance on continuous epitopes as vaccine candidates, 2) an exaggerated confidence in the specificity of antibodies, 3) the failure to recognize  ...  Structural and functional approaches to epitope characterization therefore lead to different perceptions of the nature of epitopes [11] .  ... 
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/0197-1859(86)90018-x">doi:10.1016/0197-1859(86)90018-x</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/vaxjltfkjjdgvib6n7rzf46pve">fatcat:vaxjltfkjjdgvib6n7rzf46pve</a> </span>
<a target="_blank" rel="noopener" href="https://web.archive.org/web/20170808171654/https://benthamopen.com/contents/pdf/TOVACJ/TOVACJ-2-33.pdf" title="fulltext PDF download" data-goatcounter-click="serp-fulltext" data-goatcounter-title="serp-fulltext"> <button class="ui simple right pointing dropdown compact black labeled icon button serp-button"> <i class="icon ia-icon"></i> Web Archive [PDF] <div class="menu fulltext-thumbnail"> <img src="https://blobs.fatcat.wiki/thumbnail/pdf/cb/3f/cb3f5d00ad5ba4259be362c56dfd75d91ee7ffbe.180px.jpg" alt="fulltext thumbnail" loading="lazy"> </div> </button> </a> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1016/0197-1859(86)90018-x"> <button class="ui left aligned compact blue labeled icon button serp-button"> <i class="external alternate icon"></i> elsevier.com </button> </a>
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