Amino acid alignments of the proteins with putative lophotrochozoan-specific functions. (A) Predicted proteins from Pomatoceros EST clone (pl_xlvo_42f05) and the Capitella genome are aligned with Aplysia cerebrin prohormone. The 17-residues of the cerebrin amidated peptide purified from Aplysia is underlined. (B) Alignment of tetradecapeptide sequences from 4 annelid and 3 mollusc species with 2 predicted sequences from a Pomatoceros EST (Contig 102) and the Capitella genome. (C) Comparison of the Pomatoceros protein predicted from EST clone (pl_xlvo_55b08) with Aplysia dopamine beta hydroxylase-like protein, Aplysia temptin protein and a hypothetical protein predicted from the Trichoplax genome. The central 1 region of temptin is boxed with red lines. Two disulfide bonds are marked with red lines and triangles. The conserved regions of mono-oxygenase are also boxed with yellow (N-terminal domain) and green (C-terminal) lines respectively.