FoldamerDB Help page

Navigating FoldamerDB

The FoldamerDB contains information about foldamers collected from literature. It is designed to be intuitive and user-friendly, with tooltips and help icon. To get help for the specific part just click the Help icon which appears next to it. Clicking it will open a popup window with the help messages.

FoldamerDB has options to browse all the foldamers, or browse by articles, or browse structures, or browse foldamers with biological activity. It also allows the user to perform a simple keyword search as well as chemical fingerprint based sub-structure search.

Cite FoldamerDB

Nizami bilal, 2019.

Click here to view the paper: FoldamerDB paper

Browse Foldamers

This page allow users to browse all the foldamers in a tabulated form. The table is spread over multiple pages, and a specific page can be accessed by clicking in the pagination menu.


Figure 6: FoldamerDB browse pagination.

The foldamer's table shows the structure of the foldamers, their FoldDB IDs, application, type, reference, and if the activity is reported or not, etc. The table can be filtered based on the type of backbone and year of publication. Clicking on a specific FoldDB ID opens the foldamer's entry page, where further details about it can be found (See FoldamerDB Foldamer Entry Section and Figure 10). Left mouse click on the structure to enlarge the image.


Figure 7: FoldamerDB browse all foldamer.

Browse Articles

This page allow users to browse all the articles in the FoldamerDB in a tabulated form. The title of the article, author's name, year of publication, DOI number (open in new tab), Journal name and, number of records in the articles are shown. The table can be sorted by clicking on the column's heading with ▲/▼ symbol.


Figure 8: FoldamerDB browse article.

Browse Structures

This page allow users to browse the foldamers with reported 3D crystal structure. Links are provided to the external databases such as Protein Data Bank (PDB) and Cambridge Crystallography Database (CSD) .

Browse Activity

This page allow users to browse the biological activities of the foldamers. The activity table can be filtered using two criterias based on type of activity measurement and, backbone type. To select the type of measurement and backbone click on the corresponding filter on the left side of page.


Figure 9: FoldamerDB browse activity.

FoldamerDB Foldamer Entry

This page allow users to access the detailed information on a single foldamer entry in FoldamerDB. The information in this page is devided into various sections. A molecular structure along with a 3D model of the foldamer is shown at the begining of each page. 3D model is rendered using Jsmol and various control buttons are provided to toggle the different molecular representations (Such as CPK, Ball&Stikc, and Stick etc.). To rotate the model click and hold the left button on the canvas area and move the mouse.


Figure 10: FoldamerDB Foldamer Entry- Molecular structure and interactive 3D model.

Next sections shows the information related to identifications, external IDs, structure, physico-chemical properties, biological activity, and bibliography of a single foldamers. Just below the activity block there is a link (Show all activity from this article ID:fdart0155) to browse all the activity reported in the single article ( see Figure 12 ).


Figure 11: Various information blocks in the single foldamer entry.


Figure 12: Bibliography.

FoldamerDB Article Entry

This page shows the details of a single article.

Title: e.g. 'Modulating the Structural Properties of α,γ-Hybrid Peptides by α-Amino Acid Residues: Uniform 12-Helix Versus “Mixed” 12/10-Helix'
Authors name: e.g. Misra R., Raja K.M.P., Hofmann H.-J., Gopi H.N.
Name of the Journal: e.g. Chemistry - A European Journal
Year of publication: e.g. 2017
FoldamerDB article ID: e.g. fdart0001
PUBMED ID: e.g. 28922503
DOI : Link to the extenral full text article.
Foldamers from this article can be browsed by clicking on .