Heterochromatin Protein 2 is a nonhistone chromosomal protein from Drosophila melanogaster that binds to HP1 and has been implicated in heterochromatin-induced gene silencing. Heretofore, HP1 has been the only known binding partner of HP2, a large protein devoid of sequence motifs other than a pair of AT-hooks. In an effort to identify proteins that interact with HP2 and assign functions to its various domains, nuclear proteins were fractionated under non-denaturing conditions. On separation of nuclear proteins, Nap-1, or Nucleosome assembly protein 1, has an overlapping elution profile with HP2 (assayed by Western blot) and has been identified by mass spectrometry in fractions with HP2. Upon probing fractions in which HP2 and Nap-1 are both present, we find that NURF, an ISWI-dependent chromatin remodeling complex, is also present. Results from coimmunoprecipitation experiments suggest that HP2 interacts with Nap-1 as well as with NURF; NURF appears to interact directly with both HP2 and Nap-1. Three distinct domains within HP2 mediate the interaction with NURF, allowing us to assign NURF binding domains in addition to the AT-hooks and HP1 binding domains already mapped in HP2. Mutations in Nap-1 are shown to suppress position effect variegation, suggesting that Nap-1 functions to help assemble chromatin into a closed form, as does HP2. Based on these interactions, we speculate that HP2 may cooperate with these factors in the remodeling of chromatin for silencing.Heterochromatin Protein 2 (HP2) was originally identified based on its ability to bind to Heterochromatin Protein 1 (HP1 1 ), one of the best-characterized nonhistone chromosomal proteins, in a yeast two-hybrid assay (1). HP2 colocalizes with HP1 at the pericentric heterochromatin of Drosophila polytene chromosomes, coimmunoprecipitates with HP1 from a Drosophila embryo extract, and is recruited to ectopic sites upon mislocalization of HP1. Analysis of the structure of the gene coding for HP2, Su(var)2-HP2, reveals two isoforms, a consequence of alternative splicing. Both proteins are large; the larger isoform of HP2 (HP2-L) is 356 kDa and the smaller isoform of HP2 (HP2-S) is 175 kDa. Both proteins are devoid of recognizable sequence motifs, except for two AT-hooks that are present only in the larger isoform. [AT-hooks are small, 9-aa DNA binding motifs which preferentially interact with ATCorrespondence to be sent to: