Homology modelling
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The document discusses homology modeling, which is a method for predicting protein structure using known protein templates based on amino acid similarities. It outlines the basic steps involved in homology modeling, including finding homologous proteins and selecting templates, along with various tools for structural modeling and verification. Key resources for implementing these techniques include online databases and software for alignment and model assessment.
Homology modelling
- 1. by Elda Nurafnie binti Ibnu Rasid
- 2. Able to define Homology modeling Understand the basic steps of Homology modeling
- 3. Homologous proteins Portion of 2 proteins with similar amino acids : Conserved Region Highly similar proteins may have same basic function Homology Modeling Comparative modeling of protein To predict protein structure based on known 3D shape protein as the template
- 4. TEMPLATE ? UNKNOWN STRUCTURE SEQUENCE ALIGNMENT STRUCTURAL MODEL STRUCTURAL MODEL
- 6. 1. To look for homologous protein 2. To search for template
- 12. CPHmodel EsyPred3D SWISS-MODEL
- 14. Swiss-PdbViewer 4.1 YASARA Accelrys DS Viewer 5.0
- 15. PDB Viewer
- 16. YASARA
- 17. Verification of Model Verify3D Errat Plot Ramachandran Plot
- 18. http://blast.ncbi.nlm.nih.gov/ http://www.ebi.ac.uk/Tools/msa/clustalw2/ http://www.yasara.org/ http://spdbv.vital-it.ch/download.html http://swissmodel.expasy.org/ http://nihserver.mbi.ucla.edu/ERRATv2/ http://nihserver.mbi.ucla.edu/Verify_3D/