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NbThermo:一个新的纳米抗体热稳定性数据库。

NbThermo: a new thermostability database for nanobodies.

机构信息

Faculty of Basic Sciences, University of Medellin, Cra. 87 No. 30-65, Medellin 050026, Colombia.

Centre for Molecular Simulations and Department of Biological Sciences, University of Calgary, 2500 University Drive N.W, Calgary, AB T2N 1N4, Canada.

出版信息

Database (Oxford). 2023 Apr 12;2023. doi: 10.1093/database/baad021.

Abstract

We present NbThermo-a first-in-class database that collects melting temperatures (Tm), amino acid sequences and several other categories of useful data for hundreds of nanobodies (Nbs), compiled from an extensive literature search. This so-far unique database currently contains up-to-date, manually curated data for 564 Nbs. It represents a contribution to efforts aimed at developing new algorithms for reliable Tm prediction to assist Nb engineering for a wide range of applications of these unique biomolecules. Nbs from the two most common source organisms-llama and camel-show similar distributions of melting temperatures. A first exploratory research that takes advantage of this large data collection evidences that understanding the structural bases of Nb thermostability is a complex task, since there are no apparent differences in sequence patterns between the frameworks of Nbs with lower and higher melting temperatures, indicating that the highly variable loops play a relevant role in defining Nb thermostability. Database URL https://valdes-tresanco-ms.github.io/NbThermo.

摘要

我们呈现了 NbThermo——这是一个首创的数据库,其中收集了数百种纳米抗体(Nb)的熔点(Tm)、氨基酸序列和其他几类有用数据,这些数据是通过广泛的文献检索编译而成的。到目前为止,这个独特的数据库包含了 564 个 Nb 的最新、人工编辑的数据。它为开发可靠的 Tm 预测算法的努力做出了贡献,以协助这些独特的生物分子在广泛的应用中进行 Nb 工程。来自两种最常见的来源生物——骆驼和羊驼的 Nb 显示出相似的熔点分布。首次利用这个大型数据集进行的探索性研究表明,理解 Nb 热稳定性的结构基础是一项复杂的任务,因为在 Tm 较低和较高的 Nb 框架之间,序列模式没有明显差异,这表明高度可变的环在定义 Nb 热稳定性方面发挥了相关作用。数据库网址:https://valdes-tresanco-ms.github.io/NbThermo。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/f6a2/10091358/1cb77bf28386/baad021f1.jpg

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