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. Author manuscript; available in PMC: 2014 Sep 1.
Published in final edited form as: J Mol Model. 2013 May 25;19(9):3463–3469. doi: 10.1007/s00894-013-1876-y

Figure 2. Math equations used in the DNA scanning array analysis.

Figure 2

ConsR = conservation score of each residue (based on ConSurf results), MR = heavy atom RMSD of each residue, XRZ = conserved movement for amino acid R with consensus at the Z location. XRO = conserved movement for amino acid R with no consensus sequence, ConSurfrelz = relative conserved movement of the protein with the consensus at the Z location, MDZ = movement of one of the bases of the consensus site of the DNA, MDO = movement of the base MDZ in the background with no consensus sequence, MDNAZ = relative movement of the consensus DNA sequence. DNArelz = average movement relative to the background of the consensus sequence at each position (Z), Rz = score for conserved movement of the protein and the DNA at position Z of the consensus sequence, Z±1(2) = additive scores for positions plus or minus one site (or 2) around the Z site of the consensus location.