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. 2004 Feb 20;101(9):2823–2827. doi: 10.1073/pnas.0308295100

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Copyright © 2004, The National Academy of Sciences

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Fig. 3. — (A) Correlation between the average dehydron ratio and the connectivity ν of scop families represented in the PDB. Of the 831 families interrogated, many share identical (, ν) points, albeit with different r dispersions. The error bars on the ordinates represent the dispersion in the r ratios across all members of each family subsequently averaged over all families sharing the same (, ν) point. The connectivities of families marked by solid squares were determined by examining PDB complexes where at least one domain belongs to the family, and independently from a nonstructural database (pfam). The gray squares denote families with a well determined r ratio but whose connectivity is underreported in the PDB. They are located on the correlation line once their connectivity is independently determined from a nonstructural database (pfam). The most interactive such family, with 8% dehydrons, is 1.115.1 whose PDB ν value is 4, but an independent nonstructural assessment using pfam gives ν = 7. (B) scop families distributed according to their average ratio of dehydrons per 100 hydrogen bonds (HBs). The quantity f = f(), with f = fraction of total number of families, gives the distribution here plotted in log–log scale. □, H. sapiens; ▴, M. musculus; ○, E. coli.

Inline graphic — (A) Correlation between the average dehydron ratio and the connectivity ν of scop families represented in the PDB. Of the 831 families interrogated, many share identical (, ν) points, albeit with different r dispersions. The error bars on the ordinates represent the dispersion in the r ratios across all members of each family subsequently averaged over all families sharing the same (, ν) point. The connectivities of families marked by solid squares were determined by examining PDB complexes where at least one domain belongs to the family, and independently from a nonstructural database (pfam). The gray squares denote families with a well determined r ratio but whose connectivity is underreported in the PDB. They are located on the correlation line once their connectivity is independently determined from a nonstructural database (pfam). The most interactive such family, with 8% dehydrons, is 1.115.1 whose PDB ν value is 4, but an independent nonstructural assessment using pfam gives ν = 7. (B) scop families distributed according to their average ratio of dehydrons per 100 hydrogen bonds (HBs). The quantity f = f(), with f = fraction of total number of families, gives the distribution here plotted in log–log scale. □, H. sapiens; ▴, M. musculus; ○, E. coli.