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Table 3 Validation of predictions by assuming modular mode of binding and mutations using all 20 amino acids (Approach 3). Helices predicted for 9-bp repeating triplet of all 16GNN DNA targets are reported. The predictions are exact matches to the experimentally determined helices for the 16 GNN targets earlier reported by Qiang et al. 2002 [17]

From: Exploiting the recognition code for elucidating the mechanism of zinc finger protein-DNA interactions

Target DNA 5' - 3' Qiang et al. 2002 [17]

F1

F2

F3

−11234567

−11234567

−11234567

GGG GGG GGG

NSGELTE

RSGTLTR

RSGSLTR

GTA GTA GTA

RSGDLTA

NSGDLTR

QSGTLTT

GGA GGA GGA

RSGELTK

NSGNLTR

HSGTLTN

GCT GCT GCT

HSGVLTR

NSGTLTQ

HSGSLTA

GGC GGC GGC

RSGALTR

RSGVLTT

TSGHLTQ

GAG GAG GAG

NSGTLTA

TSGTLTR

RSGTLTQ

GCG GCG GCG

HSGDLTR

RSGSLTR

QSGSLTT

GAC GAC GAC

HSGHLTR

QSGTLTT

QSGVLTR

GGT GGT GGT

DSGNLTQ

RSGALTA

RSGSLTR

GTC GTC GTC

HSGNLTQ

HSGSLTR

HSGELTQ

GCC GCC GCC

TSGVLTT

RSGTLTA

RSGVLTK

GCA GCA GCA

DSGSLTR

RSGNLTK

ASGVLTK

GTG GTG GTG

NSGELTT

RSGHLTT

TSGSLTR

GAT GAT GAT

HSGALTT

NSGDLTR

-

GTT GTT GTT

NSGSLTK

ASGHLTT

TSGELTQ

GAA GAA GAA

DSGNLTT

DSGNLTT

DSGNLTT