# Fragment Finder: A Web-based Software to Identify Similar three-dimensional Structural Motif

Ananthalakshmi, P and Kumar, Kiran M and Jeyasimhan, M and Sumathi, K and Sekar, K (2005) Fragment Finder: A Web-based Software to Identify Similar three-dimensional Structural Motif. In: Nucleic Acids Research, 33 (Suppl.). W85-W88.

 Preview
PDF
Fragment_Finder.pdf

FF (Fragment Finder) is a web-based interactive search engine developed to retrieve the userdesired similar 3D structural fragments from the selected subset of 25 or90%non-homologous protein chains. The search is based on the comparison of the main chain backbone conformational angles $(\phi and \varphi)$. Additionally, the queried motifs can be superimposed to find out how similar the structural fragments are, so that the information can be effectively used in molecular modeling. The engine has facilities to view the resultant superposed or individual 3D structure(s) on the client machine. The proposed web server is made freely accessible at the following URL:http://cluster.physics.iisc.ernet.in/ff/ or http://144.16.71.148/ff/.