Protein sequence analysis

Service

Sequence Analysis
Goal

Analysis of protein primary sequences

The protein sequence analysis may involve many analysis methods such as:

  • functional domain detection using homology search and database queries
  • transmembrane segment, motifs, low complexity and IDP predictions
  • pI, molecular mass
  • multiple sequence alignment constrained by structure or local motifs

The results are obtained using the integrated bio-computing integrated bio-computing server PAT (for Protein Analysis Toolkit). The main goal of its design was to facilitate the combination of different processing tools for more complex protein analyses.
A simplified version of PAT is accessible in free access at http://pat.cbs.cnrs.fr.
For more complex analysis, please contact the bioinformatic team.
 


 

 

  

Protein 3D modelling

Service

Molecular Modelling
Goal

Infer protein fold from homologous 3D templates or from ab initio simulations

Different predictive protocoles can be combined depending on the results obtained after each analysis step :

  • sequence - structure threading
  • active site prediction
  • full atom model inference
  • putative ligand prediction
  • model assessment and refinement

The different analysis step will be obtained using the @TOME v3.0 server (http://atome.cbs.cnrs.fr).

@TOME is a web pipeline dedicated to protein structure modeling and small ligand docking based on comparative analyses. It allows fold recognition, template selection, structural alignment editing, structure comparisons, 3D-model building and evaluation.

  • If the 3D templates are close to the query sequence (>25% sequence identity), homology modelling can be automatically obtained using the @TOME server.
  • If the closest 3D templates are poorly homologous (15-25% sequence identity), contact us to determine the best modelling strategy.
 


 

  

Connexion