Voltage-dependent cation channls are large heterooligomeric proteins. Heterologous expression of cDNAs encoding the a subunits alone of K+, Na+, or Ca2+ channels produces functional multimeric proteins; however, coexpression of those for the latter two with their auxiliary proteins causes dramatic changes in the resultant membrane currents. Fast-activating, voltage-sensitive K+ channels from brain contain four a and 13 subunits, tightly associated in a 400-kDa complex; although molecular details of the a-subunit proteins have been determined, little is known about the f-subunit constituent. Proteolytic fragments of a 13 subunit from bovine a-dendrotoxin-sensitive neuronal K+ channels yielded nine different sequences. In the polymerase chain reaction, primers corresponding to two of these peptides amplified a 329-basepair fragment in a AgtlO cDNA library from bovine brain; a full-length clone subsequently isolated encodes a protein of 367 amino acids (Mr 40,983). It shows no significant homology with any known protein. Unlike the channels' a subunits, the hydropathy profile of this sequence failed to reveal transmembrane domains. Several consensus phosphorylation motifs are apparent and, accordingly, the 13 subunit could be phosphorylated in the intact K+ channels. These results, including the absence of a leader sequence and N-glycosylation, are consistent with the 13 subunit being firmly associated on the inside of the membrane with a subunits, as speculated in a simplified model of these authentic K+ channels. Importantly, this first primary structure of a K+-channel 13 subunit indicates that none of the cloned auxiliary proteins of voltage-dependent cation channels, unlike their a subunits, belong to a superfamily of genes.