Internet resources

Software

• Cohen group SoftwareBackbone-dependent rotamer library, BLoop, QPack, FOLD, Match,
• Rasmol Script documentation & software
• MolScript v1.4
• Learn about Molsoft, L.L.C. ICM, homology modelling, docking, folding
• Dock
• Autodock
• Midas
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Structural Prediction

• List of Structural Prediction Web Sites
  • transmembrane
  • helices/coils/sheets
  • secondary structure
• List of Protein Analysis Tools
• MRC list of links to services for predicting secondary structure, solvent accessibility, homology modelling and threading (MRC, Cambdridge, England). http://www.mrc-cpe.cam.ac.uk/jong/predict/pred-tools.html
• PredictProtein: http://www.embl-heidelberg.de/predictprotein/
  Multiple sequence alignment (MAXHOM); prediction of secondary structure (PHDsec), solvent accessibility (PHDacc), transmembrane helices (PHDhtm), transmembrane topology (PHDtopology); and threading (PHDthreader).
• Swiss-Model

Databases

• Molecular modelling servers and databases
• Cambridge Structural Database, small-molecule organic and organometallic crystal structures
• Brookhaven Protein Data Bank
• DSSP program

 

Structural Search

• NCBI VAST
• Brutlag Group's Lock

 

Companies

• Biosym Insight and Discover
• Molecular Applications Group (LOOK software)
• Tripos (Sybyl)
• Oxford Molecular
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NIH molecular Modelling Homepage A modelling homepage with links

• Computational Approaches to RNA Structure Analysis at Laboratory of Mathematical Biology, National Cancer Institute, USA
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Databases

Hardware

Software

Internet

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