GitHub repository

Our codes and datasets are made publicly available on our github repository.


WEBnma provides users with quick, automated computation and analysis of low-frequency normal modes for protein structures. The computation performed through our server should help the user understand whether a given protein can undergo large amplitude movements, and results that may guide a user to pursue a complete study with more thorough analysis.

Available analyses:
+ Single Analysis – Calculates the lowest frequency normal modes of your protein and offers different types of calculations to analyse these modes.
+ Comparative Analysis – Calculates and compares the normal modes of a set of aligned protein structures.

WEBnma v3 was developed by Dandan Xue, following the work from Sandhya Tiwari and Edvin Fuglebakk.


PePrMInt is a resource for structure analaysis of peripheral membrane proteins. It consists of two parts: PePr2Vis lets you calculate and visualize the (hydrophobic) protrusions of any protein structure, which often coincide with the membrane-binding site. PrPr2DS lets you navigate and analyze a dataset of peripheral membrane proteins.
Both tools are based on our work published in Fuglebakk and Reuter, PLoS Comp Biol, 2018 and in Tubiana et al, PLoS Comp Biol, 2022. The actual dataset analyzed in the 2022 paper can be found here. We refer you to the Supporting Information of the publication for more information and access links to the rest of the datasets and code.

PePrMInt was developed by Dandan Xue. Logo is from Emmanuel Moutoussamy.


Other Resources

Green Fluorescent Proteins, Charmm force field parameters for the chromophore (Reuter et al., J.Phys.Chem B, 2002): please send us an email if you wish to receive the topology and parameter files

Please feel free to send us an email if you wish to obtain reprints of our papers, or any other material.