We studied the evolutionary history of two homologous proteins of the
human complement system, factor H (FH) and the ct chain of the C4b bin
ding protein (C4bp alpha), and included in this study the related prot
eins from the barred sand bass (P. nebulifer) and the nematode C. eleg
ans, Phylogenetic trees inferred from individual short consensus repea
ts (SCRs) and divergence among repeats from different genes suggest th
at human FH has a much closer evolutionary relationship to putative co
mplement components from P. nebulifer and C. elegans than does the C4b
p alpha. This indicates that a member of the alternative pathway of th
e complement system (FH) has an ancient origin, while a homologous mem
ber of the classical pathway (C4bpa) appeared later in evolutionary hi
story as a result of gene duplication. The ancient evolutionary positi
on of FH is in agreement with the suggestion that the alternative path
way of the complement system is older than the classical pathway. Phyl
ogenetic analysis also shows that the sand bass cofactor protein SBP1
and cofactor related protein SBCRP-1 have diverged very recently.