The hierarchical relationship among proteins can be clearly revealed in structures through structure-structure comparison. Structure families often provide more information on the relationship between proteins than what sequence families can offer, particularly when two proteins share a similar structure but no significant sequence identity. Figure 2.6.2 shows an example of a structure-structure alignment between two proteins. Sometimes, sequence similarity between two proteins exists but is not strong enough to produce an unambiguous alignment. In this case, the alignment between two structures can generate
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