OverProt creates an overview of secondary structure elements in protein families.
For each protein family from the CATH database, a secondary structure consensus is available, showing the characteristic helices and β-sheets of the family. A consensus for an arbitrary subset of a family can be computed using User-defined queries.
Search the precomputed OverProt results for the structural families in the CATH database.
Enter a CATH family ID (e.g. 1.10.630.10) or PDB ID (e.g. 2nnj) or CATH domain ID (e.g. 2nnjA00).
Run OverProt on your own list of protein structures ⇒
Cytochromes P450 (CYPs) are a family of enzymes (CATH ID 1.10.630.10) containing heme as a cofactor that function as monooxygenases. In mammals, these proteins oxidize steroids, fatty acids, and xenobiotics, and are important e.g. for the clearance of various compounds. In plants, they are involved in the biosynthesis of defensive compounds, fatty acids, and hormones.
Dipeptidyl peptidase IV is a serine protease, it contributes to the regulation of various physiological processes and serves as a marker of autoimmune diseases, adenosine deaminase-deficiency and HIV. This example shows its eight-bladed β-propeller domain (CATH ID 126.96.36.199), important for a function of the enzyme.
Lipocalins are extracellular proteins which function include transport of nutrient or pheromones, control of cell regulation, etc. The most common structure of the lipocalin protein fold is a single eight-stranded antiparallel beta-sheet, forming a continuously hydrogen-bonded beta-barrel (see left figure). But also a ten-stranded fold occurs frequently (see right figure). OverProt user-defined queries enable to analyse representatives (from CATH Superfamily 188.8.131.52) of both these types separately and compute a consensus sequence for them. Here we provide input queries for eight-stranded and ten-stranded lipocalins.
Overview of the available machine-readable data ⇒
If you found SecStrAnnotator helpful, please cite:
If you have any feedback to the algorithm, visualization, or the results for a specific family, please contact us:
firstname.lastname@example.org, Laboratory of Computational Chemistry, Masaryk University