Figure 7.

A comparison of simulated sequences and structures with those of known SH2 proteins is shown. A) and C) depict sequences simulated under the informational and physics-based models, respectively, while B) depicts the SH2 family from the Pfam database. Residue frequency distributions are shown on the left as sequence logos for A) and C), and as HMM emission probabilities for B). Red boxes indicate matching positions between the sequences. For A) and C), positions with more than 2 and 3 bits of information, respectively, were mapped onto the SH2 structure on the right with equivalent colors (white beads indicate less informative positions). For B), the 25 most probable positions were colored black on the backbone (remaining positions again in white).

Grahnen et al. BMC Evolutionary Biology 2011 11:361   doi:10.1186/1471-2148-11-361
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