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hUbiquitome: a database of experimentally verified ubiquitination cascades in humans
Du, Yipeng1,2; Xu, Nanfang1,3; Lu, Ming1; Li, Tingting1,4
刊名DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION
2011
DOI10.1093/database/bar055
收录类别SCI
文章类型Article
WOS标题词Science & Technology
类目[WOS]Mathematical & Computational Biology
资助者National Basic Research Program of China ; National Natural Science Foundation of China ; National Basic Research Program of China ; National Natural Science Foundation of China
研究领域[WOS]Mathematical & Computational Biology
关键词[WOS]DEUBIQUITINATING ENZYMES ; PROTEIN-DEGRADATION ; MASS-SPECTROMETRY ; PROTEASOME SYSTEM ; LIGASES ; CONNECTION ; MECHANISMS ; CANCER ; FAMILY
英文摘要

Protein ubiquitination is an evolutionarily conserved and functionally diverse post-translational modification achieved through the sequential action of E1-activating enzymes, E2-conjugating enzymes and E3 ligases. A summary of validated ubiquitination substrates have been presented and a prediction of new substrates have been conducted in yeast. However, a systematic summary of human ubiquitination substrates containing experimental evidence and the enzymatic cascade of each substrate is not available. In the present study, hUbiquitome web resource is introduced, a public resource for the retrieval of experimentally verified human ubiquitination enzymes and substrates. hUbiquitome is the first comprehensive database of human ubiquitination cascades. Currently, hUbiquitome has in its repertoire curated data comprising 1 E1 enzyme, 12 E2 enzymes, 138 E3 ligases or complexes, 279 different substrate proteins and 17 deubiquitination enzyme terms. The biological functions of substrates from different kinds of E3s were analyzed using the collected data. The findings show that substrates ubiquitinated by RING (Really Interesting New Gene) E3s are enriched most in apoptosis-related processes, whereas substrates ubiquitinated by other E3s are enriched in gene expression-associated processes. An analysis of the data demonstrates the biological process preferences of the different kinds of E3s. hUbiquitome is the first database to systematically collect experimentally validated ubiquitinated proteins and related ubiquitination cascade enzymes which might be helpful in the field of ubiquitination-modification research.

Database URL: http://202.38.126.151/hmdd/hubi/

语种英语
所属项目编号2011CBA01104 ; 60905014 ; 31030041
资助者National Basic Research Program of China ; National Natural Science Foundation of China ; National Basic Research Program of China ; National Natural Science Foundation of China
WOS记录号WOS:000299630600057
引用统计
被引频次:7[WOS]   [WOS记录]     [WOS相关记录]
文献类型期刊论文
条目标识符http://ir.bjmu.edu.cn/handle/400002259/60722
专题基础医学院_医学信息学系
作者单位1.Peking Univ, Hosp 1, Beijing 100034, Peoples R China
2.Peking Univ, Hlth Sci Ctr, Dept Med Informat, Beijing 100191, Peoples R China
3.Peking Univ, Hlth Sci Ctr, Key Lab Carcinogenesis & Translat Res, Minist Educ,Dept Biochem & Mol Biol, Beijing 100191, Peoples R China
4.Peking Univ, Hlth Sci Ctr, Inst Syst Biomed, Beijing 100191, Peoples R China
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GB/T 7714
Du, Yipeng,Xu, Nanfang,Lu, Ming,et al. hUbiquitome: a database of experimentally verified ubiquitination cascades in humans[J]. DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION,2011.
APA Du, Yipeng,Xu, Nanfang,Lu, Ming,&Li, Tingting.(2011).hUbiquitome: a database of experimentally verified ubiquitination cascades in humans.DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION.
MLA Du, Yipeng,et al."hUbiquitome: a database of experimentally verified ubiquitination cascades in humans".DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION (2011).
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