Publication details

2DProts: database of family-wide protein secondary structure diagrams

Authors

HUTAŘOVÁ VAŘEKOVÁ Ivana HUTAŘ Jan MIDLIK Adam HORSKÝ Vladimír HLADKÁ Eva SVOBODOVÁ Radka BERKA Karel

Year of publication 2021
Type Article in Periodical
Magazine / Source Bioinformatics
MU Faculty or unit

Central European Institute of Technology

Citation
Web https://watermark.silverchair.com/btab505.pdf?token=AQECAHi208BE49Ooan9kkhW_Ercy7Dm3ZL_9Cf3qfKAc485ysgAAAxcwggMTBgkqhkiG9w0BBwagggMEMIIDAAIBADCCAvkGCSqGSIb3DQEHATAeBglghkgBZQMEAS4wEQQMWCTMb47dZg3ryXRuAgEQgIICysir9mn34nXt7JkPtolPqhtlB0N5_SYzyZxMbYhSm_2E7M
Doi http://dx.doi.org/10.1093/bioinformatics/btab505
Description Secondary structures provide a deep insight into the protein architecture. They can serve for comparison between individual protein family members. The most straightforward way how to deal with protein secondary structure is its visualization using 2D diagrams. Several software tools for the generation of 2D diagrams were developed. Unfortunately, they create 2D diagrams based on only a single protein. Therefore, 2D diagrams of two proteins from one family markedly differ. For this reason, we developed the 2DProts database, which contains secondary structure 2D diagrams for all domains from the CATH and all proteins from PDB databases. These 2D diagrams are generated based on a whole protein family, and they also consider information about the 3D arrangement of secondary structure elements. Moreover, 2DProts database contains multiple 2D diagrams, which provide an overview of a whole protein family’s secondary structures. 2DProts is updated weekly and is integrated into CATH.
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