Welcome to dbPTM 10th Year Anniversary

dbPTM is an informative resource for protein post-translational modifications (PTMs). Due to the high-throughput of mass spectrometry-based methods in identifying site-specific PTMs, this update integrates experimental PTMs obtained from eleven public resources as well as manually curated MS/MS peptides associated with PTMs from research articles.

In order to investigate the substrate specificity for modification sites, a newly developed statistical method has been applied to identify the significant substrate motifs for each type of PTMs containing sufficient experimental data.

   

According to the data statistics in dbPTM, over 60% of PTM sites are located in the functional domains of proteins. It is known that most PTMs can create binding sites for specific protein-interaction domains that work together for cellular function.

Thus, this update integrates protein-protein interaction and domain-domain interaction to determine the functional association of PTM sites located in protein-interacting domains. Additionally, the information of structural topologies on transmembrane proteins is integrated in dbPTM in order to delineate the structural correlation between the reported PTM sites and transmembrane topologies. To facilitate the investigation of PTMs on transmembrane proteins, the PTM substrate sites and the structural topology are graphically represented. Also, literature information related to PTMs, orthologous conservations and substrate motifs of PTMs are also provided in the resource. Lastly, this version features an improved web interface to facilitate convenient access to the resource.

PTM Type
Number of experimental sites
Number of putative sites from UniProt
Number of Literatures
Phosphorylation
258,705
74,174
10,976
Ubiquitylation
43,948
1,702
246
Acetylation
35,526
19,981
2,004
N-linked Glycosylation
6,832
99,486
6,971
Succinylation
4,641
5,571
1,388
S-Nitrosylation
4,165
170
276
S-Glutathionylation
4,119
261
2,326
O-linked Glycosylation
3,508
3,695
1,211
Total
372,456
228,116
28,293

Last updated: 2015.7.1