Setting The Biological Scene

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Setting The Biological Scene

• Introducing DNA, RNA, polypeptides, proteins and
  sequence analysis

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Introducing Biological Sequence Analysis
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Adenine and Thymine Nucleotide Bases

• figAANDT.eps

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Guanine and Cytosine Nucleotide Bases

• figGANDC.eps

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The DNA double helix

• figDOUBLEHELIX.eps

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Protein and Polypetides
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The Catalytic Triad of Chymotrypsin (PDB ID 1AFQ)

• figTRIAD.eps

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Generalised Models and Their Use
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The Central Dogma of Molecular Biology

• figDOGMA.eps

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Transcription and Translation

• Transcription
• Translation

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The Emboss/Transeq Website

• http//www.ebi.ac.uk/emboss/transeq/

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EBI's EMBOSS/Transeq

• figEMBOSSTRANSEQ.eps

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Input and Results

• ggatttccct acgtcatgcc atttttctat taatcacagg
  agttcatcat gaaaaaactg 1560
• tttgcctctc tcgccatcgc tgccgttgtt gcccccgtgt
  gggccgccac ccagaccgtc 1620
• acgctgtccg taccgggcat gacctgctcc gcttgtccga
  tcaccgttaa gaaggcgatt 1680
• tccaaggtcg aaggcgtcag caaagttaac gtgaccttcg
  agacacgcga agcggttgtc 1740
• accttcgatg atgccaagac cagcgtgcag aagctgacca
  aggccaccga agacgcgggc 1800
• tatccgtcca gcgtcaagaa gtgaggcact gaaaacggca
  gcgcagcaca tctgacgccc 1860

GFPYVMPFFYSQEFIMKKLFASLAIAAVVAPVWAATQTVTLSVPGMTC
SACPITVKKAISKVEGVSKVNVTFETREAVVTFDDAKTSVQKLTKATEDA
GYPSSVKKGTENGSAAHLTP
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Input and Results

• FT CDS 1549..1824
• FT /codon_start1
• FT /db_xref"GOAP13113"
• FT /db_xref"SWISS-PROTP13113"
• FT /transl_table11
• FT /gene"merP"
• FT /product"mercury resistance protein"
• FT /protein_id"AAA98223.1"
• FT /translation"MKKLFASLAIAAVVAPVWAATQTVTLSVPGMTC
  SACPITVKKAIS
• FT KVEGVSKVNVTFETREAVVTFDDAKTSVQKLTKATEDAGYPSSVKK"

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Genome Sequencing

• Sequence assembly
• The Example DNA-Gene-Protein

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The Mer Operon Example DNA-Gene-Protein

• figMEROPERON.eps

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More Information on Mer Operon

• http//www.uga.edu/cms/FacAOS.html

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Where To From Here