Supplemental Figure (Adobe PDF) -
Fig.
S1. Sequence
alignment of CZH2 domains. CZH2 domain sequences of zizimin-related and
Dock18-related proteins were aligned separately using the Multalin program and
consensus sequences were generated (Corpet, 1988). Residues sharing >60%
similarity are shown in red text, and residues sharing 100% identity are marked
by red shading. Secondary structure predictions for zizimin1 and Dock180 CZH1
domains were made by the PHD program (Rost and Sander, 1993) and are shown on
top of the alignments. The two resulting alignments were aligned together.
Stretches showing resemblance to the consensus sequences are boxed and similar
columns are marked by asterisks. ! represents I or V; # represents any one of
N, D, Q or E; and $ represents Y or F. The numbering is according to zizimin1,
or Dock180, with 1 being residue 1570 or 1191, respectively. The approximate
boundaries of the domain were determined as follows. The zizimin1 sequence was
truncated into overlapping 200-500 amino acid segments and each segment was
searched against the NCBI NR database using PSI-BLAST at an E-value threshold
of 1e-2. BLAST hits were retrieved and separate multiple alignments were
constructed for each segment using CLUSTALW (Thompson et al., 1994). Areas of
homology between zizimin and Dock180 proteins were identified and confined on
the basis of alignment quality and secondary structure prediction.
