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. 2004 Jul 1;32(Web Server issue):W595–W601. doi: 10.1093/nar/gkh480

Figure 1.

Figure 1

This is a snapshot of the JPD window showing all the available structural/functional parameters from the JPD_DB for the 3ktq.pdb file, chain A. This window is made up of the file menu area, the speed icons area and the parameter display area. The user can find detailed information on JPD basics and specific details on any area/parameter within the JPD Help pages. The content of the JPD-produced image in this figure shows a highly evolutionarily conserved region: Motif A (residues 605–618) of the Taq pol I protein. According to Patel and Loeb (21), a wide spectrum of residue substitutions was obtained for this particular region. However, except for the Asp_610, all other residues are mutable with no consequence on the wild-type activity. Only the Asp_610 has, in addition to low relative entropy, a high value for internal contacts energy (the red box in the Contacts Energy row). Consequently, one is able to find out what the factors are that influence the mutability without a change in activity, just by looking at this very simple picture.