Kelch domain-containing protein 3 is a protein contains six repeated kelch motifs that are structurally similar to recombination activating gene 2 (RAG2), a protein involved in the activation of the V(D)J recombination. This gene is found to express specifically in testis. Its expression in pachytene spermatocytes is localized to cytoplasm and meiotic chromatin, which suggests that this gene may be involved in meiotic recombination.

The deduced 382-amino acid human protein has a calculated molecular mass of about 43 kD, and it contains an N-terminal region with 6 tandem repeat kelch motifs, predicted to form a beta-propeller structure, and a relatively hydrophobic C-terminal region. Human and mouse KLHDC3 proteins share similarity to RAG2.