羰基数据库：蛋白质羰基化位点的精心整理的数据资源。
CarbonylDB: a curated data-resource of protein carbonylation sites.
机构信息
Biostatistics and Bioinformatics Division, Yenepoya Research Center, Yenepoya University, Mangalore, Karnataka, India.
Informatics Institute, University of Missouri-Columbia, MO, USA.
出版信息
Bioinformatics. 2018 Jul 15;34(14):2518-2520. doi: 10.1093/bioinformatics/bty123.
MOTIVATION
Oxidative stress and protein damage have been associated with over 200 human ailments including cancer, stroke, neuro-degenerative diseases and aging. Protein carbonylation, a chemically diverse oxidative post-translational modification, is widely considered as the biomarker for oxidative stress and protein damage. Despite their importance and extensive studies, no database/resource on carbonylated proteins/sites exists. As such information is very useful to research in biology/medicine, we have manually curated a data-resource (CarbonylDB) of experimentally-confirmed carbonylated proteins/sites.
RESULTS
The CarbonylDB currently contains 1495 carbonylated proteins and 3781 sites from 21 species, with human, rat and yeast as the top three species. We have made further analyses of these carbonylated proteins/sites and presented their occurrence and occupancy patterns. Carbonylation site data on serum albumin, in particular, provides a fine model system to understand the dynamics of oxidative protein modifications/damage.
AVAILABILITY AND IMPLEMENTATION
The CarbonylDB is available as a web-resource and for download at http://digbio.missouri.edu/CarbonylDB/.
SUPPLEMENTARY INFORMATION
Supplementary data are available at Bioinformatics online.
动机
氧化应激和蛋白质损伤与 200 多种人类疾病有关，包括癌症、中风、神经退行性疾病和衰老。蛋白质羰基化是一种化学多样性的氧化翻译后修饰，被广泛认为是氧化应激和蛋白质损伤的生物标志物。尽管它们很重要，并且已经进行了广泛的研究，但不存在关于羰基化蛋白质/位点的数据库/资源。由于这些信息对生物学/医学研究非常有用，我们已经人工整理了一个经过实验证实的羰基化蛋白质/位点的数据集（CarbonylDB）。
结果
CarbonylDB 目前包含来自 21 个物种的 1495 种羰基化蛋白质和 3781 个位点，其中人类、大鼠和酵母是前三种物种。我们进一步分析了这些羰基化蛋白质/位点，并展示了它们的出现和占有率模式。特别是血清白蛋白上的羰基化位点数据为理解氧化蛋白质修饰/损伤的动力学提供了一个精细的模型系统。
可用性和实现
CarbonylDB 可作为网络资源使用，并可在 http://digbio.missouri.edu/CarbonylDB/ 上下载。
补充信息
补充数据可在生物信息学在线获得。
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