Introduction to Interpro and Chimera

Introduction to Interpro and Chimera - SEQUENCE DATA...

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INTRODUCTION TO INTERPRO AND CHIMERA MIMM 386D Bioinformatics Project Jean Bernatchez HIV-1 Reverse Transcriptase
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INTERPRO Integrated database of predictive protein “signatures” ie. motifs, structural domains, important sites Used to classify and automatically annotate proteins and genomes Hints at possible function of an unknown protein based on its structural motifs http://www.ebi.ac.uk/interpro/
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INTERPRO
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SEQUENCE SUBMISSION
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GRAPHICAL RESULTS
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TABLE RESULTS
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TABLE RESULTS
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PROTEIN FAMILY
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LINK TO EXTERNAL DATABASES
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LINK TO EXTERNAL DATABASES
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THE PROTEIN DATABASE (PDB) Repository for experimentally-determined structures of proteins, nucleic acids and complex assemblies X-ray crystallography and nuclear magnetic resonance (NMR) spectroscopy Provides links to a wealth of additional information on proteins which have their structures in the database http://www.pdb.org/
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PDB
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PDB SEARCH RESULTS
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CRYSTAL STRUCTURE ENTRY
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CHAINS AND RELATED STRUCTURES
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Unformatted text preview: SEQUENCE DATA SEQUENCE DATA VIEWING STRUCTURE IN JMOL VIEWING STRUCTURE IN JMOL CHIMERA Extensible program for the visualization and analysis of molecular structures Density maps, supramolecular assemblies, sequence alignments, docking results, trajectories, and conformational ensembles High-quality images and animations STRUCTURE VISUALISATION Alignment of Apo-NS5B with NS5B – NNI Class 3 co-crystal, with tryptophan residues highlighted. Legend: Blue- Ribbon form of Apo-NS5B, Red- Ribbon form of NS5B – NNI Class 3 co-crystal, Green- Tryptophan residues of Apo-NS5B, Yellow- Tryptophan residues of NS5B – NNI Class 3 co-crystal SEQUENCE ALIGNMENT Alignment of HIV-1 RT and MMLV RT MOLECULAR SURFACE MAP Electrostatic surface of Cyclophilin B MOVIES Superposition of PFV Integrase – Raltegravir co-crystal structure with best docking pose for Raltegravir using AutoDock Vina QUESTIONS?...
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Introduction to Interpro and Chimera - SEQUENCE DATA...

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