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Molecular murder mysteries 2013
 

Molecular murder mysteries 2013

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    Molecular murder mysteries 2013 Molecular murder mysteries 2013 Presentation Transcript

    • 11 © 2009 PerkinElmer© 2009 PerkinElmer© 2009 PerkinElmer© 2013 Digital World BiologyMolecular Murder MysteriesSandra Porter, Ph.D. @digitalbio,sandra@digitalworldbiology.com
    • 22Thanks to…www.bio-link.orgBiotech-careers.orgNWABR.orgNational Science FoundationBio-ITEST, DRL 0833779National Science FoundationBio-Link DUE 0903317
    • 33OverviewPracticeDivide into groups – up to 7Solve mysteriesPresent resultsSchedule
    • 44 Not just for barcoding!Cytochrome C OxidaseA BC D
    • 55Gene name Protein name Gene location 1OCC chainMT-COI cytochrome c oxidase subunit I Mitochondrion AMT-CO2 cytochrome c oxidase subunit II Mitochondrion BMT-CO3 cytochrome c oxidase III Mitochondrion CCOX4I1 cytochrome c oxidase subunit IV isoform 1 Chromosome 16 DCOX4I2 cytochrome c oxidase subunit IV isoform 2 (lung) Chromosome 20 DCOX5A cytochrome c oxidase subunit Va Chromosome 15 ECOX5B cytochrome c oxidase subunit Vb Chromosome 2 FCOX6A1 cytochrome c oxidase subunit VIa polypeptide 1 Chromosome 12 GCOX6A2 cytochrome c oxidase subunit VIa polypeptide 2 Chromosome 16 GCOX6B1 cytochrome c oxidase subunit VIb polypeptide 1 Chromosome 19 HCOX6B2 cytochrome c oxidase subunit VIb polypeptide 2 (testis) Chromosome 19 HCOX6C cytochrome c oxidase subunit VIc Chromosome 8 ICOX7A1 cytochrome c oxidase subunit VIIa polypeptide 1 (muscle) Chromosome 19 JCOX7A2 cytochrome c oxidase subunit VIIa polypeptide 2 (liver) Chromosome 6 JCOX7B cytochrome c oxidase subunit VIIb Chromosome X KCOX7B2 cytochrome c oxidase subunit VIIb2 Chromosome 4 KCOX7C cytochrome c oxidase subunit VIIc Chromosome 5 LCOX8A cytochrome c oxidase subunit VIIIA Chromosome 11 MCOX8C cytochrome c oxidase subunit VIIIC Chromosome 14 MNot just for barcoding!Cytochrome C Oxidase
    • 66 Not just for barcoding!Cytochrome C OxidaseO2H2O
    • 77Goal – to identify the substance bound to the active siteCome up with a mystery story to explain what happenedPrerequisite knowledge Identify 3 key elements (oxygen, nitrogen, carbon) Use Wikipedia Be familiar with the concept of an active site Use Cn3DMolecular Murder Mysteries
    • 88Go to figshare.comSearch for cytochrome C oxidase – see lots of structures Download 1OCC.cn3 – cytochrome C oxidaseLook at features of structurePractice with Cn3DFigure out colors for elementsMolecular Murder Mysteries
    • 99Molecular Murder Mysteries
    • 1010Positively charged amino acidMolecular Murder Mysteries
    • 1111Molecular Murder MysteriesGroup Structure What is bound to the active site?Control 1OCC_3ABM_anno1.cn3 Oxygen – normal function of protein reducesO2 to H2OA 1OCC_1OCOB 1OCC_1OCZC 1OCC_3AG1D 1OCC_3AG2E 1OCC_3AG3F 1OCC_3AG4G 1OCC_3ABK