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Transcript of Http://es1261.8m.com/ed25.gif. Bridges to Structure Peter Woodruff Stacey Kiser Joyce Cadwallader.
![Page 1: Http://es1261.8m.com/ed25.gif. Bridges to Structure Peter Woodruff Stacey Kiser Joyce Cadwallader.](https://reader030.fdocuments.us/reader030/viewer/2022032606/56649eaa5503460f94baeba5/html5/thumbnails/1.jpg)
http://es1261.8m.com/ed25.gif
![Page 2: Http://es1261.8m.com/ed25.gif. Bridges to Structure Peter Woodruff Stacey Kiser Joyce Cadwallader.](https://reader030.fdocuments.us/reader030/viewer/2022032606/56649eaa5503460f94baeba5/html5/thumbnails/2.jpg)
Bridges to Structure
Peter Woodruff
Stacey Kiser
Joyce Cadwallader
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Organ Organ SystemsSystems …
Traditional “Systems Biology”
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DissectionDissection
FormForm
FunctionFunction
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…
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Building Investigations at Different Levels of Structure
http://www.nsf.gov/od/lpa/forum/colwell/rc03norwaycsis/sld011.htm
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Size
Organs
Tissues
Cells
Macro
molecules
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Size
Organs
Tissues
Cells
Macro
molecules
Time
ontogeny
Phylogeny
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Multidimensional Systems Space
http://tetraspace.alkaline.org/
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Brian White’s Course Web Site
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Phylogenetic Tree Instructions
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Choosing Organisms
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Results
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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).
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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.
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Organ System Protein NCBI
#
#of Hits in GBVET, MAM, INV
Image
(Structure)
Integumentary
Skeletal
Muscular
Digestive
Circulatory
Respiratory
Sensory
Nervous
Reproductive
Endocrine
Immune
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Get NCBI Protein File
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Get a List of Similar Molecules
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Get Structure
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Workbench.sdsc.edu
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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.).
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Workbench (Organisms Used)
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Workbench Alignment Data
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Organ System
Protein NCBI
#
#of Hits in GBVET, MAM, INV
Image
(Structure)
Integumentary Keratin NoSkeletal collagenMuscular tropomyosin 1IC2Digestive
Circulatory
Respiratory
Sensory Crysallin IA5D 484 Yes(41)Nervous Ach E 2ACK 251 Yes(9)Reproductive E Rece * 196 Yes(22)Endocrine Insulin IEV6 743 Yes(161)Immune Interleukin 1 1IOB Yes
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Respiratory: CFTR
http://www.people.virginia.edu/~rjh9u/gif/cftr.gif
QuickTime™ and aTIFF (Uncompressed) decompressor
are needed to see this picture.
QuickTime™ and aTIFF (Uncompressed) decompressor
are needed to see this picture.
http://www.brunel.ac.uk/depts/bl/project/biocomp/sequence/seqanal_guide/pds/cftr.jpg
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Respiratory: Surfactant Protein D
QuickTime™ and aTIFF (Uncompressed) decompressor
are needed to see this picture.
http://ashtoret.tau.ac.il/~sharon/hspd.jpg
Human surfactant protein D (pdb entry:1b08)
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Reproductive: Estrogen receptor1ERE
QuickTime™ and aTIFF (Uncompressed) decompressor
are needed to see this picture.
http://www.bch.msu.edu/~kuhn/projects/screening/er.jpg
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Immune System:Immunoglobulin, Variable Region
& Interleukin-1 BetaCn3D of cd00099.3, IGv
Cn#D of2MIB
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Skeletal: Collagen
Cn3D of 1CGD
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Muscular: Tropomyosin
http://202.20.99.18/~jjkim/Lecture/Animalphy/Ap10muscle/actin-ca.gif
Cn3D of 1IC2
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Workbench Unrooted Tree
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www.dcode.org
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Data from search for estrogen receptor
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Conservation Information for Estrogen Receptor
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Bringing Dissection Up to Date
http://www.activehistory.co.uk/2nds/TudorProject/tudor_medicine_and_health.htm
http://mason.gmu.edu/~dgomez2/