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Transcript 
Protein structure
Friday, 10 February 2006
Introduction to Bioinformatics
Brigham Young University
DA McClellan
[email protected]
Classical structural biology
Determine biochemical activity
Purify protein
Determine structure
Understand mechanism, function
Fig. 9.1
Page 274
Structural genomics
Determine genomic DNA sequence
Predict protein
Determine structure or analyze in silico
Understand mechanism, function
Fig. 9.1
Page 274
Structural genomics
A goal of structural genomics is to determine
protein structures that span the full extent
of sequence space.
Page 273
Protein function and structure
Function is often assigned based on homology. However,
homology based on sequence identity may be subtle.
Consider RBP and OBP: these are true homologs
(they are both lipocalins, sharing the GXW motif).
But they are distant relatives, and do not share significant
amino acid identity in a pairwise alignment.
Protein structure evolves more slowly than
primary amino acid sequence. RBP and OBP share
highly similar three dimensional structures.
Page 274
Principles of protein structure
Primary amino acid sequence
Secondary structure: a helices, b sheets
Tertiary structure: from X-ray, NMR
Quaternary structure: multiple subunits
Page 276
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