Molecular Biotechnology From protein to gene, from gene to protein

Paula Veríssimo Sandra Ribeiro Sukalyan Chaterjee Rui Cruz Raquel Vinhas

Lab. Biotecnologia Molecular do CNC Dep. Bioquímica, Universidade de Coimbra IBMC

Course Schedule

Monday Tuesday Wednesday Thursday Friday 12Oct 13 Oct. 14 Oct. 15 Oct. 16 Oct. 9-10 Lect.1 Lect. 5&6 LAB LAB Lect. 7

10-11 Lect.2 LAB

14-15 Lect. 3&4 LAB

Monday Tuesday Wednesday Thursday Friday 19 Oct 20 Oct. 21 Oct. 22 Oct. 23Oct. 10-12 Lect 8 Lect 9 Lect 10

Overview of Overview of 14-16 LAB LAB LAB Pratical Pratical sessions sessions

Lectures

• Lect.1 Cloning strategies • Lect.2 Expression of cloned genes in prokaryotes • Lect. 3& 4: Expression of cloned genes in eukaryotes • Lect. 5:Recombinant protein production • Lect. 6:Protein purification • Lect. 7: Protein engineering • Lect. 8: Protein structure: historical perspective • Lect 9: Methods for the determination of protein 3D structures • Lect 10: Protein folding and unfolding: misfolding disorders

Practical course

• Protein engineering • Expression, purification and characterisation of recombinant enzymes • Structural analysis of biomedically-relevant enzymes; mechanism of action of compounds targeting blood clotting, HIV infection and hypercholesterolemia.

Miscellaneous Bytes of Information

http://www.embl-heidelberg.de/srs5/ Sequence Retrieval System: SRS5 server http://www.expasy.ch/srs5/ http://www.expasy.ch/cgi-bin/sprot-search-de Search of sequences in SwissProt and TrEMBL http://www.ncbi.nlm.nih.gov/Entrez/protein.html Search of protein sequences in NCBI database http://bmbsgill.leeds.ac.uk/bmb5dp/owl.html Address of OWL http://www.expasy.ch/ch2d/2d-index.html 2D databases http://www.mdc-berlin.de/~emu/heart/ 2D Human Heart database http://www.rcsb.org/pdb 3D database http://vega.crbm.cnrs-mop.fr/bin/fasta-guess.cgi Genestream FastA http://www2.ebi.ac.uk/fasta3/ FastA http://www.expasy.ch/cgi-bin/BLASTEMBnet-CH.pl BLAST http://www.ncbi.nlm.nih.gov/blast/blast.cgi BLAST http://bmbsgill.leeds.ac.uk/bmb5dp/blast/blast.html BLAST search of OWL http://www.expasy.org/tools ExPASy Proteomics tools Last http://www2.ebi.ac.uk Database Searching, Browsing, and Analysis Tools http://www.ebi.ac.uk/msd Tools for PDB analysis http://www.fmi.ch/biology/research_tools.html Pedro`s BioMolecular Research Tools http://prowl.rockefeller.edu/ PROWL-for protein chemistry and mass spectrometry http://www.proteometrics.com Protein info, search with keywords or sequences http://www.embl-heidelberg.de/predictprotein/predictprotein.html Prediction of secondary structure http://www.nwfsc.noaa.gov/protocols/ Molecular Biology Protocols http://www.nwfsc.noaa.gov/protocols/bioinformatics.html / Molecular Biology Protocols http://www.bioinforman.ac.uk/dbbrowser/bioactivity/ Bioinformatic Practical