Overview: how eukaryotic genomes work and evolve: two features of eukaryotic genomes present a major information- processing challenge. First, the typical multicellular eukaryotic genome is much larger than that of a prokaryotic cell. Not only is the dna associated with protein, but also this dna- protein complex called chromatin is organized into higher structural levels than the dna-protein complex in prokaryotes. Each human chromosome averages about 1. 5 108 nucleotide pairs. If extended, each dna molecule would be about 4 cm long, thousands of times longer than the cell diameter. This chromosome and 45 other human chromosomes fit into. This occurs through an elaborate, multilevel system of dna the nucleus. packing: histone proteins are responsible for the first level of dna packaging. The mass of histone in chromatin is approximately equal to the. Their positively charged amino acids bind tightly to negatively mass of dna. charged dna.