CancerPPD: a database of anticancer peptides and proteins.
Bottom Line: Besides this primary information, CancerPPD stores predicted tertiary structures as well as peptide sequences in SMILES format.In order to assist users, a number of web-based tools have been integrated, these include keyword search, data browsing, sequence and structural similarity search.We believe that CancerPPD will be very useful in designing peptide-based anticancer therapeutics.
Affiliation: Bioinformatics Centre, CSIR-Institute of Microbial Technology, Chandigarh 160036, Punjab, India.Show MeSH
Related in: MedlinePlus
Mentions: CancerPPD consists of 3491 peptide entries corresponding to 624 unique peptides. While searching for the ACPs in the literature, it was noted that most ACPs have been tested on various cancer cell lines showing different IC50 values. Therefore, to secure all this information, multiple entries of a single ACP have been made if the identical peptide has been found to be tested on different cell lines (e.g. HeLa, A549, MCF-7, etc.) or has been tested by different assays (e.g. MTT, WST-1, LDH, etc.). The information of cancer cell lines, which have been used as model system to evaluate the anticancer activity of ACPs is very important and thus information of total 249 cancer cell lines corresponding to 21 tissue types (Figure 3) was compiled and linked with various databases like CCLE and COSMIC. Since the stability of the peptide is one of the major concerns while developing therapeutic peptides, many ACPs and their analogs with different chemical modifications/ non-natural amino acids have been designed and evaluated for their anticancer activity. This information has also been compiled and total 290 peptide entries have been made, which have different chemical modifications. Apart from this, entries of peptide having L-amino acids (3274), D-amino acids (26) and both L- and D-amino acids (178) have been compiled. The most common assay to determine the anticancer activity of ACPs is the cell viability assay, which measure the viability of cells using various substrates like MTT. However, various other assays have also been reported in the literature for determining the anticancer activity of these peptides. The current version of CancerPPD holds information of 16 different types of assay used to test the anticancer potency of peptides.
Affiliation: Bioinformatics Centre, CSIR-Institute of Microbial Technology, Chandigarh 160036, Punjab, India.