Highly Sensitive Detection of Individual HEAT and ARM Repeats with HHpred and COACH
Figure 9
Fold prediction and individual repeat analysis of candidate proteins.
The results of the application of fold prediction and individual repeat analysis to selected bona fide HEAT and ARM repeat proteins fragments are shown. The two top hits retrieved from fold prediction servers FFAS03 [25], SAM-T06 [24] and HHpred [16] are given. HEAT (both eukaryotic and prokaryotic) and ARM templates are shown in bold font, ARM templates in blue. Highlighted in yellow are matches with “significant” scores (see Methods). HHpred and COACH(Established Repeats) results were grouped in four classes as described in the text and the numbers of repeats falling in the three better scoring classes are shown here. Repeats detected are those with matches better than the lowest threshold by either HHpred or COACH(Established Repeats); given in brackets is the number of potential repeats, i.e. identified repeats plus additional helical segments of appropriate size. REP and Pfam results are for subsignificant/significant matches as returned by the servers.
