CutDB
This source may no longer be available. No known URL could be resolved successfully.
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 3,070 proteolytic events for 470 different proteases captured from public archives (such as MEROPS and HPRD) and publications.
Description
More detailed information about this field from each metasource.
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 3,070 proteolytic events for 470 different proteases captured from public archives (such as MEROPS and HPRD) and publications.
metasource: Fairsharing.orgversion: FAIRsharing.org: CutDB; CutDB; DOI: https://doi.org/10.25504/FAIRsharing.er98b1; Last edited: Jan. 8, 2019, 1:16 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
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 3,070 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.
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
Webpage:
http://cutdb.burnham.orgWebpage
More detailed information about this field from each metasource.
http://cutdb.burnham.org
metasource: Fairsharing.orgversion: FAIRsharing.org: CutDB; CutDB; DOI: https://doi.org/10.25504/FAIRsharing.er98b1; Last edited: Jan. 8, 2019, 1:16 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
http://cutdb.burnham.org/
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
Publications:
Publications
More detailed information about this field from each metasource.
CutDB: a proteolytic event database
PMID: 17142225
metasource: Fairsharing.org
version: FAIRsharing.org: CutDB; CutDB; DOI: https://doi.org/10.25504/FAIRsharing.er98b1; Last edited: Jan. 8, 2019, 1:16 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
Publications
More detailed information about this field from each metasource.
CutDB: a proteolytic event database
PMID: 17142225
metasource: Fairsharing.org
version: FAIRsharing.org: CutDB; CutDB; DOI: https://doi.org/10.25504/FAIRsharing.er98b1; Last edited: Jan. 8, 2019, 1:16 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
-
CutDB: a proteolytic event database
PubMed citations: 58.
58 articles citing: CutDB: a proteolytic event database
Deep Learning-Based Advances In Protein Posttranslational Modification Site and Protein Cleavage Prediction. PMID:35696087
Pathophysiological Implications of Urinary Peptides in Hepatocellular Carcinoma. PMID:34359689
Discovery, validation and sequencing of urinary peptides for diagnosis of liver fibrosis-A multicentre study. PMID:33160210
Proteolytic cleavage of Slit by the Tolkin protease converts an axon repulsion cue to an axon growth cue in vivo. PMID:32994163
Novel Apoptotic Mediators Identified by Conservation of Vertebrate Caspase Targets. PMID:32326640
Urinary detection of lung cancer in mice via noninvasive pulmonary protease profiling. PMID:32238573
BIOPEP-UWM Database of Bioactive Peptides: Current Opportunities. PMID:31783634
Predictive models of protease specificity based on quantitative protease-activity profiling data. PMID:31330204
The carboxy-terminus, a key regulator of protein function. PMID:31106589
Software-aided workflow for predicting protease-specific cleavage sites using physicochemical properties of the natural and unnatural amino acids in peptide-based drug discovery. PMID:30620739
The Role of Apoptotic Signaling in Axon Guidance. PMID:30340315
Twenty years of bioinformatics research for protease-specific substrate and cleavage site prediction: a comprehensive revisit and benchmarking of existing methods. PMID:30184176
Toward more accurate prediction of caspase cleavage sites: a comprehensive review of current methods, tools and features. PMID:29860277
Neuronal Cell Death. PMID:29488822
Software-aided approach to investigate peptide structure and metabolic susceptibility of amide bonds in peptide drugs based on high resolution mass spectrometry. PMID:29091918
Viral hijacking of host caspases: an emerging category of pathogen-host interactions. PMID:28524855
Multiomic disease signatures converge to cytotoxic CD8 T cells in primary Sjögren's syndrome. PMID:28522454
Caspases and their substrates. PMID:28498362
Matrix metalloproteinases - From the cleavage data to the prediction tools and beyond. PMID:28347746
Early infiltration of p40IL12(+)CCR7(+)CD11b(+) cells is critical for fibrosis development. PMID:27621813
Determinants of Macromolecular Specificity from Proteomics-Derived Peptide Substrate Data. PMID:27455965
The Proteasix Ontology. PMID:27259807
HIPPO-Integrin-linked Kinase Cross-Talk Controls Self-Sustaining Proliferation and Survival in Pulmonary Hypertension. PMID:27119551
Autoimmune response to transthyretin in juvenile idiopathic arthritis. PMID:26973882
The Dendritic Cell Major Histocompatibility Complex II (MHC II) Peptidome Derives from a Variety of Processing Pathways and Includes Peptides with a Broad Spectrum of HLA-DM Sensitivity. PMID:26740625
Characterizing Protease Specificity: How Many Substrates Do We Need? PMID:26559682
Twenty years of the MEROPS database of proteolytic enzymes, their substrates and inhibitors. PMID:26527717
Peptidase specificity from the substrate cleavage collection in the MEROPS database and a tool to measure cleavage site conservation. PMID:26455268
Natural variability of minimotifs in 1092 people indicates that minimotifs are targets of evolution. PMID:26068475
CleavPredict: A Platform for Reasoning about Matrix Metalloproteinases Proteolytic Events. PMID:25996941
Granzyme B-induced mitochondrial ROS are required for apoptosis. PMID:25361078
Down-regulation of the antisense mitochondrial non-coding RNAs (ncRNAs) is a unique vulnerability of cancer cells and a potential target for cancer therapy. PMID:25100722
A novel secreted metalloprotease (CD2830) from Clostridium difficile cleaves specific proline sequences in LPXTG cell surface proteins. PMID:24623589
Substrate-driven mapping of the degradome by comparison of sequence logos. PMID:24244149
Sequence-derived structural features driving proteolytic processing. PMID:24227478
Identification of the novel substrates for caspase-6 in apoptosis using proteomic approaches. PMID:24195789
MEROPS: the database of proteolytic enzymes, their substrates and inhibitors. PMID:24157837
pLogo: a probabilistic approach to visualizing sequence motifs. PMID:24097270
Crystal structure of full-length human collagenase 3 (MMP-13) with peptides in the active site defines exosites in the catalytic domain. PMID:23913860
Proteolytic post-translational modification of proteins: proteomic tools and methodology. PMID:23887885
Cleavage entropy as quantitative measure of protease specificity. PMID:23637583
High-resolution analysis and functional mapping of cleavage sites and substrate proteins of furin in the human proteome. PMID:23335997
Evaluation of the Zucker diabetic fatty (ZDF) rat as a model for human disease based on urinary peptidomic profiles. PMID:23236474
PROSPER: an integrated feature-based tool for predicting protease substrate cleavage sites. PMID:23209700
The Online Protein Processing Resource (TOPPR): a database and analysis platform for protein processing events. PMID:23093603
Oral enzyme therapy for celiac sprue. PMID:22208988
TopFIND 2.0--linking protein termini with proteolytic processing and modifications altering protein function. PMID:22102574
Structural determinants of limited proteolysis. PMID:21682278
GPS-CCD: a novel computational program for the prediction of calpain cleavage sites. PMID:21533053
Association of the small GTPase Rheb with the NMDA receptor subunit NR3A. PMID:21135540
Human protein reference database and human proteinpedia as discovery resources for molecular biotechnology. PMID:20927658
Analyzing protease specificity and detecting in vivo proteolytic events using tandem mass spectrometry. PMID:20597098
A large and accurate collection of peptidase cleavages in the MEROPS database. PMID:20157488
Structural and kinetic determinants of protease substrates. PMID:19767749
A sequence and structure based method to predict putative substrates, functions and regulatory networks of endo proteases. PMID:19492082
Human Protein Reference Database--2009 update. PMID:18988627
PMAP: databases for analyzing proteolytic events and pathways. PMID:18842634
The Degradome database: mammalian proteases and diseases of proteolysis. PMID:18776217
Tags:
Tags
More detailed information about this field from each metasource.
enzyme
metasource: Fairsharing.org
version: FAIRsharing.org: CutDB; CutDB; DOI: https://doi.org/10.25504/FAIRsharing.er98b1; Last edited: Jan. 8, 2019, 1:16 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
protein
metasource: Fairsharing.org
version: FAIRsharing.org: CutDB; CutDB; DOI: https://doi.org/10.25504/FAIRsharing.er98b1; Last edited: Jan. 8, 2019, 1:16 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
metabolic and signaling pathways
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
protein-protein interactions
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
proteomics resources
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
Tags
More detailed information about this field from each metasource.
enzyme
metasource: Fairsharing.orgversion: FAIRsharing.org: CutDB; CutDB; DOI: https://doi.org/10.25504/FAIRsharing.er98b1; Last edited: Jan. 8, 2019, 1:16 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
protein
metasource: Fairsharing.orgversion: FAIRsharing.org: CutDB; CutDB; DOI: https://doi.org/10.25504/FAIRsharing.er98b1; Last edited: Jan. 8, 2019, 1:16 p.m.; Last accessed: Jan 03 2022 7:07 p.m.
metabolic and signaling pathways
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
protein-protein interactions
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
proteomics resources
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
enzyme protein metabolic and signaling pathways protein-protein interactions proteomics resources
Need help integrating and/or managing biomedical data?