Predicting DNA/Protein Interactions

Figure 1. Improved shape potentials
Figure 2. Basis for improved electrostatic potential
Figure 3. The crystallographic structure of the nucleosome core particle (NCP).
Figure 4. The electrostatic potential of the histone core of the NCP
Figure 5. DOT global search results for B-DNA fragments docked to the histone core
Figure 6. DNA fragments docked to the nucleosome histone core
Figure 7. Comparison of a 9-base-pair fragment of B-DNA with all 9-base-pair fragments along the NCP-bound DNA
Figure 8. DOT Prediction of Histone H5 complexed with the NCP
Figure 9. Ranking of DOT solutions
Figure 10. Top 8 solutions from DOT for docking B-DNA to the RFX DNA-binding domain
Figure 11. Comparison of the structures of winged-helix (WH) proteins
Figure 12. Comparison of the electrostatic potential of WH proteins
Figure 13. B-DNA docked to the coordinates of unbound uracil-DNA-glycosylase (UDG)
Figure 14. The AVS visualization system dataflow network used to produce Figure 12