Figure 4. Cathepsin F-like and chicken cystatin C protein alignment. Consensus residues are indicated as described in Fig. 1. Residues identical in all six sequences are denoted by an uppercase letter in the consensus sequence. Presumptive N-terminal residues produced by cleavage of the leader peptide and the proregion are denoted by an * under the consensus sequence. The GenBank entries for the sequences shown are: hF, human cathepsin F, NP_003784; mF, mouse cathepsin F, AAF13147; flF, Japanese flounder Paralichthys olivaceus, AU050404 (partial peptide sequence derived from +1 frame of mRNA sequence); DrF, Drosophila melanogaster CG12163 gene product, AAF52055; CeF, Caenorhabditis elegans cathepsin F-like hypothetical protein F41E6.6, AAB65956; and chC, chicken egg white cystatin, P01038. The alignment was produced by separately aligning chicken cystatin to flounder cathepsin F, and human, mouse, Drosophila, and C. elegans cathepsin F proteins to each other by means of ClustalX. These two profiles were then aligned, and this alignment was manually adjusted by means of an alignment of all five CPs. The alignment of chicken cystatin with the cathepsin proregions agrees quite well with an alignment based on threading reported by Nagler et al. (1999a).