iUUCD


29106644	iUUCD 2.0: an update with rich annotations for ubiquitin and ubiquitin-like conjugations. [PMID: 29106644] Zhou J, Xu Y, Lin S, Guo Y, Deng W, Zhang Y, Guo A, Xue Y. Abstract Here, we described the updated database iUUCD 2.0 (http://iuucd.biocuckoo.org/) for ubiquitin-activating enzymes (E1s), ubiquitin-conjugating enzymes (E2s), ubiquitin-protein ligases (E3s), deubiquitinating enzymes (DUBs), ubiquitin/ubiquitin-like binding domains (UBDs) and ubiquitin-like domains (ULDs), which act as key regulators in modulating ubiquitin and ubiquitin-like (UB/UBL) conjugations. In total, iUUCD 2.0 contained 136 512 UB/UBL regulators, including 1230 E1s, 5636 E2s, 93 343 E3s, 9548 DUBs, 30 173 UBDs and 11 099 ULDs in 148 eukaryotic species. In particular, we provided rich annotations for regulators of eight model organisms, especially in humans, by compiling and integrating the knowledge from nearly 70 widely used public databases that cover cancer mutations, single nucleotide polymorphisms (SNPs), mRNA expression, DNA and RNA elements, protein-protein interactions, protein 3D structures, disease-associated information, drug-target relations, post-translational modifications, DNA methylation and protein expression/proteomics. Compared with our previously developed UUCD 1.0 (?0.41 GB), iUUCD 2.0 has a size of ?32.1 GB of data with a >75-fold increase in data volume. We anticipate that iUUCD 2.0 can be a more useful resource for further study of UB/UBL conjugations. Nucleic Acids Res. 2018:46(D1) \| 51 Citations (from Europe PMC, 2025-03-22)

iUUCD 2.0: an update with rich annotations for ubiquitin and ubiquitin-like conjugations. [PMID: 29106644]

Zhou J, Xu Y, Lin S, Guo Y, Deng W, Zhang Y, Guo A, Xue Y.

Here, we described the updated database iUUCD 2.0 (http://iuucd.biocuckoo.org/) for ubiquitin-activating enzymes (E1s), ubiquitin-conjugating enzymes (E2s), ubiquitin-protein ligases (E3s), deubiquitinating enzymes (DUBs), ubiquitin/ubiquitin-like binding domains (UBDs) and ubiquitin-like domains (ULDs), which act as key regulators in modulating ubiquitin and ubiquitin-like (UB/UBL) conjugations. In total, iUUCD 2.0 contained 136 512 UB/UBL regulators, including 1230 E1s, 5636 E2s, 93 343 E3s, 9548 DUBs, 30 173 UBDs and 11 099 ULDs in 148 eukaryotic species. In particular, we provided rich annotations for regulators of eight model organisms, especially in humans, by compiling and integrating the knowledge from nearly 70 widely used public databases that cover cancer mutations, single nucleotide polymorphisms (SNPs), mRNA expression, DNA and RNA elements, protein-protein interactions, protein 3D structures, disease-associated information, drug-target relations, post-translational modifications, DNA methylation and protein expression/proteomics. Compared with our previously developed UUCD 1.0 (?0.41 GB), iUUCD 2.0 has a size of ?32.1 GB of data with a >75-fold increase in data volume. We anticipate that iUUCD 2.0 can be a more useful resource for further study of UB/UBL conjugations.

Nucleic Acids Res. 2018:46(D1) | 51 Citations (from Europe PMC, 2025-03-22)

URL:	http://iuucd.biocuckoo.org
Full name:	integrated annotations for Ubiquitin and Ubiquitin-like Conjugation Database
Description:	The released iUUCD (integrated annotations for Ubiquitin and Ubiquitin-like Conjugation Database, ver 2.0) is an updated systematic resource for ubiquitin and ubiquitin-like conjugations. 27 E1s, 109 E2s, 1,153 E3s, 164 DUBs, 396 UBDs and 183 ULDs were collected from scientific literatures and classified into 1, 4, 23, 8, 27, 11 families, respectively. The newly release added 6 new families for E2, E3 and DUB enzymes, as well as a hierarchical classification for UBD and ULD families.
Year founded:	2018
Last update:	2017
Version:	2.0
Accessibility:	Accessible
Country/Region:	China

Data type:	Protein
Data object:	Animal Fungi Plant
Database category:	Expression Gene genome and annotation Genotype phenotype and variation Interaction Modification
Major species:	Homo sapiens Pan troglodytes Mus musculus Oryza sativa Zea mays Dothistroma septosporum Aspergillus flavus
Keywords:	ubiquitin ubiquitin conjugation ubiquitin-activating enzymes deubiquitinating enzymes ubiquitin-binding domain containing proteins

University/Institution:	Huazhong University of Science and Technology
Address:	Key Laboratory of Molecular Biophysics of Ministry of Education, College of Life Science and Technology and the Collaborative Innovation Center for Biomedical Engineering, Huazhong University of Science and Technology, Wuhan, Hubei 430074, China.
City:	Wuhan
Province/State:	Hubei
Country/Region:	China
Contact name (PI/Team):	Yu Xue
Contact email (PI/Helpdesk):	xueyu@hust.edu.cn

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Database Commons a catalog of worldwide biological databases