OverProt: secondary structure consensus for protein families

Adam Midlik; Ivana Hutařová Vařeková; Jan Hutař; Aliaksei Chareshneu; Karel Berka; Radka Svobodová

doi:10.1093/bioinformatics/btac384

OverProt: secondary structure consensus for protein families

Bioinformatics. 2022 Jul 11;38(14):3648-3650. doi: 10.1093/bioinformatics/btac384.

Authors

Adam Midlik^{1

2}, Ivana Hutařová Vařeková^{2

3

4}, Jan Hutař², Aliaksei Chareshneu^{1

2}, Karel Berka⁴, Radka Svobodová^{1

2}

Affiliations

¹ CEITEC-Central European Institute of Technology, Masaryk University, 625 00 Brno, Czech Republic.
² National Centre for Biomolecular Research, Faculty of Science, Masaryk University, 625 00 Brno, Czech Republic.
³ Department of Computer Systems and Communications, Faculty of Informatics, Masaryk University, 602 00 Brno, Czech Republic.
⁴ Department of Physical Chemistry, Faculty of Science, Palacký University, 771 46 Olomouc, Czech Republic.

PMID: 35674374
DOI: 10.1093/bioinformatics/btac384

Abstract

Summary: Every protein family has a set of characteristic secondary structures. However, due to individual variations, a single structure is not enough to represent the whole family. OverProt can create a secondary structure consensus, showing the general fold of the family as well as its variation. Our server provides precomputed results for all CATH superfamilies and user-defined computations, visualized by an interactive viewer, which shows the secondary structure element type, length, frequency of occurrence, spatial variability and β-connectivity.

Availability and implementation: OverProt Server is freely available at https://overprot.ncbr.muni.cz.

Supplementary information: Supplementary data are available at Bioinformatics online.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Computers
Consensus
Protein Structure, Secondary
Proteins* / chemistry
Software*

Substances

Proteins

Abstract

Publication types

MeSH terms

Substances

Grants and funding