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Analyse & Model 3D Structure

Analyse & Model 3D Structure

3D Viewers
3D Analysis
  • TOPS (Protein topology cartoon generation at EBI, UK)
  • 3DB Browser (Structure database browser at Weizmann Institute of Science, Israel)
  • STRUCTURE (Molecular Modeling Database MMDB from ENTREZ at NCBI)
  • Predicting Protein 3D structure based on homologous sequence search (EMBL Heidelberg, Germany)
  • LOCK (Compare 3D structures of query and target proteins (PDB codes) and visualize superposed 3D structures at Stanford University, USA)
  • VAST (Structure-structure similarity search at NCBI, US)
  • PsiPred (Sequence profile based fold recognition at Brunel University, UK)
  • ASC (Analytic Surface Calculation of PDB molecules at EMBL, Heidelberg)
  • Protein-Protein Interaction Server (UCL, UK)
  • DOMPLOT (Generate schematic diagrams of the structural domain organisation annotated by ligand contacts at University College London, UK)
  • GenTHREADER (Sequence profile based fold recognition on PSIpred server at Brunel University, UK)
  • 123 (Fold prediction by aligning (threading) to a (set of) structure(s)
  • DALI (Automated Protein Structure Alignment at EBI,UK)
  • OCA (Structure database browser at EBI, UK)
  • LIBRA (LIght Balance for Remote Analogous proteins: search compatible structure of a target sequence by threading at NIG, Jp)
  • MolSurfer (Calculate and navigate protein-protein interfaces at EMBL, Heidelberg)
3D Homology Modelling
  • CPHmodels (Structure prediction by comparative homology modeling at CBS, Denmark)
  • 3DCrunch (Browse database of modeled Swiss-Prot proteins at ExPASy, Switzerland)
  • SDSC1 (Protein structure homology modeling server at SDSC, USA)
  • Swiss-Model (Automated protein modeling server at ExPASy, Switzerland)
  • FAMS (Fully Automated Modeling Service at Kitasato University, JP)
  • 3D-Jigsaw (Comparative modeling server at Imperial Cancer Research Fund, London, UK )
  • Meta PP (Collection of structure prediction services at Columbia University, USA)
  • List of comparative modeling tools (at the Rockefeller University, NY, USA)


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