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ENCoM Server

ENCoM is a coarse grained normal modes analysis method to evaluate thermostability of proteins. The ENCoM Server can be used by anyone to evaluate the effect of mutations on the stability of a structure. The server can also generate geometrically realistic conformational ensembles.
Consult the guide
Cite: Frappier V., Chartier M. and Najmanovich R. (2015) ENCoM server: exploring protein conformational space and the effect of mutations on protein function and stability. Nucleic Acids Research. PubMed | NAR | PDF
ENCoM Tutorial

Model combination scripts

Git Page
Effect of Mutations Conformational Sampling Guide

Conformational Sampling

Conformations are generated after calculating modes on the structure with ENCoM. Ensembles of conformations are generated using the starting mode, the min. RMSD and max. RMSD from the initial structure.

See the adenylate kinase example - Conformations were generated for adenylate kinase (PDB 4AKE), a protein known to undergo large conformational changes during catalytic cycle. Visualize the results and download the PDB trajectory file on the example page.

Job Submission Form

For help please consult the Guide.

1. Input Structure

Enter a PDB code: | Or upload one:

2. Chains (optional)

To calculate modes, ENCoM can use specific chains of the PDB structure. Leave blank for all chains or enter comma separated chains (e.g.: A,B,C)

3. Parameters

Number of modes used:
Starting mode:
Maximum RMSD distortion:
RMSD distortion per conformation:

4. Email notification (optional)

If desired, an email will be sent upon job submission with a link to the results page. A second email will be sent upon termination.