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1aay.A1 1zaa.C1 1p47.A1 1jk1.A1 1f2i.K1 1p47.B1 1a1j.A1 1a1i.A1 1jk2.A1 1a1l.A1 1a1g.A1 1f2i.H1

Zif268 ZF1. (a). 1aay.A1 1zaa.C1 1p47.A1 1jk1.A1 1f2i.K1 1p47.B1 1a1j.A1 1a1i.A1 1jk2.A1 1a1l.A1 1a1g.A1 1f2i.H1 1f2i.L1 1f2i.G1 1f2i.J1 1f2i.I1 1a1h.A1 1a1k.A1 1a1f.A1. RDER:GCG RDER:GCG RDER:GCG RAER:GCG RDER:GCG RDER:GCG RADR:GCG RADR:GCA RAER:GCT RDER:GCA

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1aay.A1 1zaa.C1 1p47.A1 1jk1.A1 1f2i.K1 1p47.B1 1a1j.A1 1a1i.A1 1jk2.A1 1a1l.A1 1a1g.A1 1f2i.H1

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  1. Zif268 ZF1 (a) 1aay.A1 1zaa.C1 1p47.A1 1jk1.A1 1f2i.K1 1p47.B1 1a1j.A1 1a1i.A1 1jk2.A1 1a1l.A1 1a1g.A1 1f2i.H1 1f2i.L1 1f2i.G1 1f2i.J1 1f2i.I1 1a1h.A1 1a1k.A1 1a1f.A1 RDER:GCG RDER:GCG RDER:GCG RAER:GCG RDER:GCG RDER:GCG RADR:GCG RADR:GCA RAER:GCT RDER:GCA DSNR:GCG RDER:GCG RDER:GCG RDER:GCG RDER:GCG RDER:GCG QGSR:GCA RADR:GAC DSNR:GAC

  2. Zif268 ZF2 (b) 1aay.A2 1a1h.A2 1jk2.A2 1jk1.A2 1p47.A2 1llm.D2 1a1g.A2 1a1k.A2 1a1l.A2 1a1j.A2 1a1i.A2 1a1f.A2 1zaa.C2 1p47.B2 1llm.C2 1f2i.J2 1f2i.H2 1f2i.L2 1f2i.G2 1f2i.K2 1f2i.I2 RDHT:TGG RDHT:TGG RDHT:TGG RDHT:TGG RDHT:TGG RDHT:TGG RDHT:TGG RDHT:TGG RDHT:TGG RDHT:TGG RDHT:TGG RDHT:TGG RDHT:TGG RDHT:TGG RDHT:TGG RDHT:TGG RDHT:TGG RDHT:TGG RDHT:TGG RDHT:TGG RDHT:TGG

  3. Zif268 ZF3 (c) RDER:GCG RDER:GCG RDER:GCG RDER:GCG RDER:GCG RDER:GCG RDER:GCG RDER:GCG RDER:GCG RDER:GCG RDER:GCG RDER:GCG RDER:GCG RDER:GCG RDER:GCG 1aay.A3 1zaa.C3 1a1k.A3 1jk1.A3 1a1f.A3 1a1i.A3 1a1l.A3 1a1h.A3 1jk2.A3 1p47.A3 1a1g.A3 1llm.D3 1a1j.A3 1p47.B3 1llm.C3

  4. Designed Zinc Fingers (d) 1g2d.C1 1g2d.F1 1g2f.C1 1g2f.F1 1g2d.C2 1g2d.F2 1g2f.C2 1g2f.F2 1g2d.C3 1g2d.F3 1g2f.C3 1g2f.F3 1mey.C1 1mey.F1 1mey.C2 1mey.F2 1mey.C3 1mey.F3 QTNT:AAA QTNT:AAA QTNT:AAA QTNT:AAA QTGQ:ATA QTGQ:ATA QASA:ATA QASA:ATA THTR:TCG THTR:TCG THTR:TCG THTR:TCG QSNK:GAA QSNK:GAA QSDK:GCA QSDK:GCA RDHR:GAG RDHR:GAG

  5. YY1, Tramtrack, GLI, TFIIIA (e) DSAK:AGA ESKR:GGA LFNT:AAT QTNS:CAA HSNR:GAT HSNR:GAT RDNA:AAG RDNA:AAG AYMV:ACG RENT:CAA NSDK:CCC DSSK:ACC KWKA:AGA KWKA:AGA SHHR:GGG SHHR:GGG TANK:GAT TANK:GAT LSRR:GTT LSRR:GTT 1ubd.C1 1ubd.C2 1ubd.C3 1ubd.C4 2drp.A1 2drp.D1 2drp.A2 2drp.D2 2gli.A2 2gli.A3 2gli.A4 2gli.A5 1tf6.A1 1tf6.D1 1tf6.A2 1tf6.D2 1tf6.A3 1tf6.D3 1tf6.A5 1tf6.D5 YY1 Tramtrack GLI TFIIIA

  6. Figure S1. Detailed view of regions along the diagonal of the docking-comparison matrix shown in Figure 1. Pair-wise IAS values are shown as in Figure 1. Scores below 5.0 are in white (not shown). IAS values between domains with a wild-type-docking geometry (see text) in each of the three Zif268 groups are delineated with a heavy dashed line. PDB identifier, chain ID and ZF domain number (as in Table 1) for each complex are indicated at the far left. Amino acid identities for the canonical ZF helix positions -1, 2, 3 and 6 (as in Figure 2), and base identities for the recognized base triplet (e.g. bases 4-6, 4’-6’ for ZF2 in Figure 2) are indicated for each complex.

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