PLAbDab-nano: a database of camelid and shark nanobodies from patents and literature.

IF 16.6 2区生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY Nucleic Acids Research Pub Date : 2024-10-10 DOI:10.1093/nar/gkae881

Gemma L Gordon, Alexander Greenshields-Watson, Parth Agarwal, Ashley Wong, Fergus Boyles, Alissa Hummer, Ana G Lujan Hernandez, Charlotte M Deane

{"title":"PLAbDab-nano: a database of camelid and shark nanobodies from patents and literature.","authors":"Gemma L Gordon, Alexander Greenshields-Watson, Parth Agarwal, Ashley Wong, Fergus Boyles, Alissa Hummer, Ana G Lujan Hernandez, Charlotte M Deane","doi":"10.1093/nar/gkae881","DOIUrl":null,"url":null,"abstract":"<p><p>Nanobodies are essential proteins of the adaptive immune systems of camelid and shark species, complementing conventional antibodies. Properties such as their relatively small size, solubility and high thermostability make VHH (variable heavy domain of the heavy chain) and VNAR (variable new antigen receptor) modalities a promising therapeutic format and a valuable resource for a wide range of biological applications. The volume of academic literature and patents related to nanobodies has risen significantly over the past decade. Here, we present PLAbDab-nano, a nanobody complement to the Patent and Literature Antibody Database (PLAbDab). PLAbDab-nano is a self-updating, searchable repository containing ∼5000 annotated VHH and VNAR sequences. We describe the methods used to curate the entries in PLAbDab-nano, and highlight how PLAbDab-nano could be used to design diverse libraries, as well as find sequences similar to known patented or therapeutic entries. PLAbDab-nano is freely available as a searchable web server (https://opig.stats.ox.ac.uk/webapps/plabdab-nano/).</p>","PeriodicalId":19471,"journal":{"name":"Nucleic Acids Research","volume":null,"pages":null},"PeriodicalIF":16.6000,"publicationDate":"2024-10-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Nucleic Acids Research","FirstCategoryId":"99","ListUrlMain":"https://doi.org/10.1093/nar/gkae881","RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q1","JCRName":"BIOCHEMISTRY & MOLECULAR BIOLOGY","Score":null,"Total":0}

引用次数: 0

Abstract

Nanobodies are essential proteins of the adaptive immune systems of camelid and shark species, complementing conventional antibodies. Properties such as their relatively small size, solubility and high thermostability make VHH (variable heavy domain of the heavy chain) and VNAR (variable new antigen receptor) modalities a promising therapeutic format and a valuable resource for a wide range of biological applications. The volume of academic literature and patents related to nanobodies has risen significantly over the past decade. Here, we present PLAbDab-nano, a nanobody complement to the Patent and Literature Antibody Database (PLAbDab). PLAbDab-nano is a self-updating, searchable repository containing ∼5000 annotated VHH and VNAR sequences. We describe the methods used to curate the entries in PLAbDab-nano, and highlight how PLAbDab-nano could be used to design diverse libraries, as well as find sequences similar to known patented or therapeutic entries. PLAbDab-nano is freely available as a searchable web server (https://opig.stats.ox.ac.uk/webapps/plabdab-nano/).

查看原文

微信好友朋友圈 QQ好友复制链接

本刊更多论文

PLAbDab-nano：来自专利和文献的骆驼和鲨鱼纳米抗体数据库。

纳米抗体是驼科动物和鲨鱼类适应性免疫系统的重要蛋白质，是对传统抗体的补充。纳米抗体具有体积相对较小、可溶性和高热稳定性等特性，因此 VHH（重链可变重域）和 VNAR（可变新抗原受体）模式是一种很有前景的治疗形式，也是广泛生物应用的宝贵资源。在过去十年中，与纳米抗体相关的学术文献和专利数量显著增加。在此，我们介绍专利和文献抗体数据库（PLAbDab）的纳米抗体补充材料 PLAbDab-nano。PLAbDab-nano 是一个自我更新、可搜索的资源库，包含 5000 个注释的 VHH 和 VNAR 序列。我们介绍了PLAbDab-nano中的条目整理方法，并重点介绍了如何利用PLAbDab-nano设计多样化的文库，以及如何找到与已知专利或治疗条目相似的序列。PLAbDab-nano 可作为可搜索网络服务器免费提供 (https://opig.stats.ox.ac.uk/webapps/plabdab-nano/)。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

求助全文

约1分钟内获得全文去求助

来源期刊

Nucleic Acids Research 生物-生化与分子生物学

CiteScore

27.10

自引率

4.70%

发文量

1057

审稿时长

2 months

期刊介绍： Nucleic Acids Research (NAR) is a scientific journal that publishes research on various aspects of nucleic acids and proteins involved in nucleic acid metabolism and interactions. It covers areas such as chemistry and synthetic biology, computational biology, gene regulation, chromatin and epigenetics, genome integrity, repair and replication, genomics, molecular biology, nucleic acid enzymes, RNA, and structural biology. The journal also includes a Survey and Summary section for brief reviews. Additionally, each year, the first issue is dedicated to biological databases, and an issue in July focuses on web-based software resources for the biological community. Nucleic Acids Research is indexed by several services including Abstracts on Hygiene and Communicable Diseases, Animal Breeding Abstracts, Agricultural Engineering Abstracts, Agbiotech News and Information, BIOSIS Previews, CAB Abstracts, and EMBASE.