* Your assessment is very important for improving the workof artificial intelligence, which forms the content of this project
Download Bridges
Survey
Document related concepts
Phosphorylation wikipedia , lookup
Signal transduction wikipedia , lookup
List of types of proteins wikipedia , lookup
Magnesium transporter wikipedia , lookup
Protein (nutrient) wikipedia , lookup
Protein phosphorylation wikipedia , lookup
Protein moonlighting wikipedia , lookup
Protein domain wikipedia , lookup
Intrinsically disordered proteins wikipedia , lookup
G protein–coupled receptor wikipedia , lookup
Protein folding wikipedia , lookup
Homology modeling wikipedia , lookup
Protein–protein interaction wikipedia , lookup
Proteolysis wikipedia , lookup
Protein structure prediction wikipedia , lookup
Nuclear magnetic resonance spectroscopy of proteins wikipedia , lookup
Transcript
http://es1261.8m.com/ed25.gif Bridges to Structure Peter Woodruff Stacey Kiser Joyce Cadwallader Traditional “Systems Biology” Organ Systems … Dissection Form Function … Building Investigations at Different Levels of Structure http://www.nsf.gov/od/lpa/forum/colwell/rc03norwaycsis/sld011.htm O r g a n s T i s s u e s C e l l s M a c r o m o l e c u l e s O r g a n s T i s s u e s ontogeny C e l l s m o l Me a c c u r l o e s Time Multidimensional Systems Space http://tetraspace.alkaline.org/ Brian White’s Course Web Site Phylogenetic Tree Instructions Choosing Organisms Results Protein Structure Investigation • The students will investigate protein structure (Problem Posing) by use of the Biology Workbench and NCBI. • They will get information from the NCBI web site about a protein they think might be representative of a particular organ system. • They will then gather the materials from that site to dissect the structure of their protein including a visual representation (Problem Solving). Protein Structure Comparison • Either using the NCBI or Workbench sequences,they will use Workbench to do additional trees of representative proteins of a particular organ system • They will present their findings on the proteins in class. Organ System Protein NCBI #of Hits in GBVET, # MAM, INV Integumentary Skeletal Muscular Digestive Circulatory Respiratory Sensory Nervous Reproductive Endocrine Image (Structure) Get NCBI Protein File Get a List of Similar Molecules Get Structure Workbench.sdsc.edu Work in Progress • Adding activities from Comparative Genome site would be helpful, but time allowed only a start. • Although we have provided some ascension numbers for proteins, remember only genomic sequences work in this database (Find them at NCBL.). Workbench (Organisms Used) Workbench Alignment Data Organ System Protein NCBI #of Hits in GBVET, # MAM, INV Integumentary Keratin Image (Structure) No Skeletal collagen Muscular tropomyosin 1IC2 Sensory Crysallin Nervous Ach E Reproductive E Rece Endocrine Insulin IA5D 2ACK * IEV6 Digestive Circulatory Respiratory Interleukin 1 484 251 196 743 Yes(41) Yes(9) Yes(22) Yes(161) Respiratory: CFTR QuickTi me™ a nd a TIFF (Uncompre ssed ) decomp resso r are need ed to se e th is p icture. http://www.people.virginia.edu/~rjh9u/gif/cftr.gif QuickTime™ and a TIFF (Uncompressed) decompressor are needed to see this picture. http://www.brunel.ac.uk/depts/bl/project/biocomp/sequence/seqanal_guide/pds/cftr.jpg Respiratory: Surfactant Protein D QuickTime™ and a TIFF (Uncompressed) decompressor are needed to see this picture. Human surfactant protein D (pdb entry:1b08) http://ashtoret.tau.ac.il/~sharon/hspd.jpg Reproductive: Estrogen receptor 1ERE QuickTime™ and a TIFF (Uncompressed) decompressor are needed to see this picture. http://www.bch.msu.edu/~kuhn/projects/screening/er.jpg Immune System: Immunoglobulin, Variable Region & Interleukin-1 Beta Cn3D of cd00099.3, IGv Cn#D of2MIB Skeletal: Collagen Cn3D of 1CGD Muscular: Tropomyosin Cn3D of 1IC2 http://202.20.99.18/~jjkim/Lecture/Animalphy/Ap10muscle/actin-ca.gif Workbench Unrooted Tree www.dcode.org Data from search for estrogen receptor Conservation Information for Estrogen Receptor Bringing Dissection Up to Date http://www.activehistory.co.uk/2nds/TudorProject/tudor_medicine_and_health.htm http://mason.gmu.edu/~dgomez2/