Sequence analysis course Lecture 8 Sequence databank searching 1.
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Transcript of Sequence analysis course Lecture 8 Sequence databank searching 1.
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Sequence analysis courseSequence analysis course
Lecture 8
Sequence databank searching 1
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Protein main-chain and side-chain
‘R’ designates the side-chain
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charge
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(cystein bridge)
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VHLTPEEKSAVTALWGKVNVDEVGGEALGRLLVVYPWTQRFFESFGDLSTPDAVMGNPKVKAHGKKVLGAFSDGLAHLDNLKGTFATLSELHCDKLHVDPENFRLLGNVLVCVLAHHFGKEFTPPVQAAYQKVVAGVANALAHKYH
PRIMARY STRUCTURE (amino acid sequence)
QUATERNARY STRUCTURE (oligomers)
SECONDARY STRUCTURE (helices, strands)
TERTIARY STRUCTURE (fold)
Protein structure hierarchical levelsProtein structure hierarchical levels
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Compared to preceding plot, RMSD is better able to pin-point relationships between more divergent sequences (RMSD stays relatively small for a longer time as compared to PAM distance). Note that the spread around RMSD is larger
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