The locations of the origin recognition complex (ORC) in mammalian genomes have been elusive. We have therefore analyzed the DNA sequences associated with human ORC via in vivo cross-linking and chromatin immunoprecipitation. Antibodies specific for hOrc2 protein precipitate chromatin fragments that also contain other ORC proteins, suggesting that the proteins form multisubunit complexes on chromatin in vivo. A binding region for ORC was identified at the CpG island upstream of the human TOP1 gene. Nascent strand abundance assays show that the ORC binding region coincides with an origin of bidirectional replication. The TOP1 gene includes two well characterized matrix attachment regions. The matrix attachment region elements analyzed contain no ORC and constitute no sites for replication initiation. In initial attempts to use the chromatin immunoprecipitation technique for the identification of additional ORC sites in the human genome, we isolated a sequence close to another actively transcribed gene (TOM1) and an alphoid satellite sequence that underlies centromeric heterochromatin. Nascent strand abundance assays gave no indication that the heterochromatin sequence serves as a replication initiation site, suggesting that an ORC on this site may perform functions other than replication initiation.Origins of DNA replication are the chromosomal regions where DNA replication forks for bidirectional duplication of replicons are established. The large and discontinuous genomes of eukaryotes require a large number of origins that are distributed throughout the genome to guarantee a complete replication within the limited time of the S phase in a cell division cycle (for reviews, see Refs. 1-9. The best characterized eukaryotic origins are those of the budding yeast Saccharomyces cerevisiae because they function as sites of replication initiation in extrachromosomal plasmid DNA and are, therefore, amenable to detailed molecular analyses (10, 11). Prototypic budding yeast origin (autonomously replicating sequences (ARSs) 1 ) are composed of 100 -200 base pairs and contain several essential sequence elements including a domain A with the AT-rich ARS consensus sequence and three short stimulatory elements, B1-B3, which are functionally important but divergent in sequence (12). The ARS consensus sequence and the adjacent B1 domain element constitute a binding site for proteins of the origin recognition complex (ORC), whereas the B3 domain element forms a binding site for the transcription factor Abf1 in some, but not all yeast origins (13).ORC is a multimeric protein complex composed of six essential subunits (Orc1p-Orc6p) that associate in an ATP-dependent manner with ARSs (13-15). The major known function of ORC appears to be the recruitment of factors such as Cdc6, Mcm proteins, and others for the formation of functional prereplication complexes (16 -19).Origins of replication in multicellular organisms can usually not be investigated by ARS assays. Therefore, biochemical procedures such as two-dimensional gel electrop...