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Analyzing Conserved Motifs and Glycosylation Sites in E. coli Gene Sequences

This exercise focuses on identifying conserved motifs within the genomic regions upstream of 350 E. coli genes, utilizing tools for multiple sequence alignment developed by Tom Schneider and Mike Stephens. Additionally, it explores the importance of N-linked glycosylation patterns for eukaryotic protein folding, guiding users to search for specific N-glycosylation motifs. Key tasks involve extracting amino acid sequences from selected proteins and understanding their functional significance in biological systems.

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Analyzing Conserved Motifs and Glycosylation Sites in E. coli Gene Sequences

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Presentation Transcript

  1. Practice (sort of...)

  2. http://weblogo.berkeley.edu/ Graphical representation of an amino acid or nucleic acid multiple sequence alignment developed by Tom Schneider and Mike Stephens

  3. Exercise: Identify conserved motif in the 50 bases upstream of 350 E. coli genes

  4. Results

  5. MOTIF Search http://motif.genome.jp/MOTIF2.html

  6. MOTIF Search • N-linked glycosylation is important for the folding of some of eukaryotic proteins. • Search the N-glycosylation site motif:Asn, followed by anything but Pro, followed by either Ser or Thr, followed by anything but Pro

  7. Results

  8. http://www.expasy.ch/prosite/

  9. Horseshoe: Leucine-rich repeat

  10. Domain architecture of proteins with Leucine-rich repeats Alignment of these proteins

  11. Extract the amino acid sequence of the following protein: AAW55471 cytochrome oxidase subunit I [Butisbutis] Duckbill sleepers (Butis butis) sometimes swim belly up.

  12. Good luck with the final assignment!

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