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Computational Biology Resource Center

Molecular Modelling

Handy URLs for Molecular Modeling.

  • Brookhaven Protein Data Bank (PDB) is now inactive. See the next link.
  • The Brookhaven contract for maintaing PDB has changed (Oct 1, 1998) to the Research Collaboratory for Structural Bioinformatics (RCSB). The RCSB site has excellent search engines, plus numerous links to structural analysis tools. Here's RCSB's Home Page.
  • The Nucleic Acid Database Project at Rutgers University: Search engines and archives. NDB
  • Molecular Information Agent Home Page MIA
  • Several links to Small drug and natural product archives.Click here.
  • The NIH Molecular Modeling Page with divers links. Molecules-NIH
  • Rapid Protein Threading with OR Technique-RAPTOR RAPTOR
  • The META server for Multiple Predictions: 2ndary,Function, Thread and Fold .META (PHD)
  • Yet Another META server with divers links to Protein Predictors. META-ALSO
  • The Pred2ary Home Page.Pred2ary
  • JPRED consensus Secondary Structure Prediction.JPRED
  • Swiss-Model: Links to First Effort, Optimize and 7TM modellers.Swiss
  • DALI Protein Comparison Home Page DALI
  • FSSP Fold Classification DALI-FSSP Server
  • UCLA-DOE Fold Recognition Server Home Page UCLA-FOLD
  • Fill out and Submit a BLOCKS e-mail form
  • Structural Classification of Proteins SCOP. SCOP Page
  • CASP vX: The Regular Protein Structure Prediction experiment. CASP
  • CAFASP : The Critical Assessment of Fully Automated Structure Prediction. CAFASP
  • CAFASP : The Critical Assessment of Fully Automated Structure Prediction Servers CAFASP-Servers
  • CAPRI: Critical Assessment of Protein Interaction CAPRI
  • Rapid Protein Threading with OR Technique-RAPTOR RAPTOR
  • If you have your browser set up to use the RASMOL Viewer, click here to see taxol. pdb Here's an HTML version of the RASMOL molecular viewer manual. RASMOL HELP
  • Here's a user manual for SwissPDBViewer.
  • HINT2.35 manual: For MUSC users with access to SYBYL and HINT. HINT2.35
  • If you have your browser set up to use a VRML Viewer, click here to see a VRML molecular Gallery. Here's an HTML version of the PDB to VRML manualPDB2VRML HELP
  • Link to MUSC's licensed GASP Servers MUSC ONLYGASP
  • Ilya Vakser's Molecular Modeling Group at SUNSB GRAMM
  • Zuker Lab page with links to RNA/DNA MFOLD serversZUKER_MFOLD

    revised by ESH August 14, 2012

 
 
 

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