TABLE 3.

Active and passive residues used in the definition of the ambiguous interaction restraints for HADDOCK

Active residues of p140-(375–480)	Passive residues of dsDNA	Method determined
Tyr-382, Arg-388, Lys-458, and Lys-461a	Any DNA nucleotide (5′pCTCGAGGTCG3′/ 5′CGACCTCGAGATCA3′)	Mutagenesis data (5)
Thr-415 Hγa	O1P, O2P, and O3P of 5′pC19	Conservation/mutagenesis
Tyr-385 Hδ	Any H2, H6, H8	Intermolecular NOEs (see Table 2)
Gly-416 HN	Any H2, H6, H8
Arg-423 Hϵ	Any H4′, H5′, H5″
Gly-455 or Gln-456 HN	Any H4′, H5′, H5″

^a A specific restraint is shown (see text for details).