CutDB


17142225	CutDB: a proteolytic event database. [PMID: 17142225] Igarashi Y, Eroshkin A, Gramatikova S, Gramatikoff K, Zhang Y, Smith JW, Osterman AL, Godzik A. Abstract Beyond the well-known role of proteolytic machinery in protein degradation and turnover, many specialized proteases play a key role in various regulatory processes. Thousands of highly specific proteolytic events are associated with normal and pathological conditions, including bacterial and viral infections. However, the information about individual proteolytic events is dispersed over multiple publications and is not easily available for large-scale analysis. CutDB is one of the first systematic efforts to build an easily accessible collection of documented proteolytic events for natural proteins in vivo or in vitro. A CutDB entry is defined by a unique combination of these three attributes: protease, protein substrate and cleavage site. Currently, CutDB integrates 3070 proteolytic events for 470 different proteases captured from public archives (such as MEROPS and HPRD) and publications. CutDB supports various types of data searches and displays, including clickable network diagrams. Most importantly, CutDB is a community annotation resource based on a Wikipedia approach, providing a convenient user interface to input new data online. A recent contribution of 568 proteolytic events by several experts in the field of matrix metallopeptidases suggests that this approach will significantly accelerate the development of CutDB content. CutDB is publicly available at http://cutdb.burnham.org. Nucleic Acids Res. 2007:35(Database issue) \| 73 Citations (from Europe PMC, 2025-03-29)

CutDB: a proteolytic event database. [PMID: 17142225]

Igarashi Y, Eroshkin A, Gramatikova S, Gramatikoff K, Zhang Y, Smith JW, Osterman AL, Godzik A.

Beyond the well-known role of proteolytic machinery in protein degradation and turnover, many specialized proteases play a key role in various regulatory processes. Thousands of highly specific proteolytic events are associated with normal and pathological conditions, including bacterial and viral infections. However, the information about individual proteolytic events is dispersed over multiple publications and is not easily available for large-scale analysis. CutDB is one of the first systematic efforts to build an easily accessible collection of documented proteolytic events for natural proteins in vivo or in vitro. A CutDB entry is defined by a unique combination of these three attributes: protease, protein substrate and cleavage site. Currently, CutDB integrates 3070 proteolytic events for 470 different proteases captured from public archives (such as MEROPS and HPRD) and publications. CutDB supports various types of data searches and displays, including clickable network diagrams. Most importantly, CutDB is a community annotation resource based on a Wikipedia approach, providing a convenient user interface to input new data online. A recent contribution of 568 proteolytic events by several experts in the field of matrix metallopeptidases suggests that this approach will significantly accelerate the development of CutDB content. CutDB is publicly available at http://cutdb.burnham.org.

Nucleic Acids Res. 2007:35(Database issue) | 73 Citations (from Europe PMC, 2025-03-29)

URL:	http://cutdb.burnham.org/
Full name:
Description:	The CutDB focuses on the annotation of individual proteolytic events, both actual and predicted.
Year founded:	2007
Last update:
Version:
Accessibility:	Accessible
Country/Region:	United States

Data type:	Protein
Data object:	Animal Archaea Bacteria Fungi Plant Virus
Database category:	Gene genome and annotation
Major species:	Homo sapiens Mus musculus
Keywords:	individual proteolytic event

University/Institution:	Burnham Institute
Address:	10901 North Torrey Pines Road La Jolla, CA 92037, USA
City:
Province/State:	CA
Country/Region:	United States
Contact name (PI/Team):	Adam Godzik
Contact email (PI/Helpdesk):	adam@burnham.org

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Database Commons a catalog of worldwide biological databases