HHsearch alignment for GI: 254780525 and conserved domain: TIGR02492
>TIGR02492 flgK_ends flagellar hook-associated protein FlgK; InterPro: IPR002371 Within the bacterial flagellum, the basal-body rod, the hook, the hook- associated proteins (HAPs), and the helical filament together constitute an axial substructure whose elements share structural features and a common export pathway . The amino acid sequences of the hook protein and of the three hook-associated proteins of Salmonella typhimurium have been deduced from the DNA sequences of their structural genes (flgE, flgK, flgL and fliD respectively). These sequences have been compared with each other and with those for the filament protein (flagellin) and four rod proteins. The hook protein was found to be most similar to the distal rod protein (FlgG) and the proximal hook-associated protein (HAP1), which are thought to be attached to the proximal and distal ends of the hook, the similarities being most pronounced near the N- and C-termini. It is thought that the axial proteins may adopt amphipathic alpha-helical conformations at their N- and C-termini. These regions of the filament and hook are believed to be responsible for quaternary interactions between subunits. Interaction between N- and C-terminal alpha-helices may be important in the formation of the axial structures of the flagellum. Although consensus sequences have been noted, no consensus extends to the entire set of axial proteins. Thus the basis for recognition of a protein for export by the flagellum-specific pathway remains to be identified.; GO: 0005198 structural molecule activity, 0009296 flagellum biogenesis, 0009424 flagellin-based flagellum hook.
Probab=100.00 E-value=0 Score=326.38 Aligned_cols=214 Identities=16% Similarity=0.124 Sum_probs=166.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEHHHHHHCCC------CCCCCCCCEEEEEEEEEECCCCEEECC
Q ss_conf 88999999999999863788775302778671422002465430477------776312205885788630341112148
Q gi|254780525|r 5 GSMKTAMSGMDAQSNRVSAVSDNIANVDTVGYKRTAIAFSSLVFPST------SNSYVSGGLEISTKDMISEQGSLMHTA 78 (421)
Q Consensus 5 ~~l~~a~SGL~A~q~al~vts~NIANanT~GYsRq~~~~~~~~~~~~------~~~~~G~GV~v~~i~r~~~~~~~~~t~ 78 (421)
T Consensus 1 ~~l~~a~~gL~a~q~al~~~~~NIANant~GY~Rq~a~~~~~~~~~~~~~~~~~~~~~G~GV~v~~i~R~~d~~l~~q~~ 80 (495)
T TIGR02492 1 SLLNIAKSGLSASQIALSVTSNNIANANTPGYSRQRAELTASPAGGQGLNATEGGLQIGTGVKVTSIRRIQDQFLDNQLR 80 (495)
T ss_pred CHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCCCCCCCCEEEEEEEEHHHHHHHHHHH
T ss_conf 94789999999999999987436224679896046677503334321110001466555646986554415489999998
Q ss_pred C-----------HHHHHHCCCCCCCCCCCCCC-EEEEECCCCCCCCCCCCCCCCCCCHHHHHHCCCCCCCCCCCCCCCCC
Q ss_conf 3-----------02211036662010179882-56420112221236720145562011111013455543234454444
Q gi|254780525|r 79 S-----------NTDLAIQGKGFFIVKGRDNV-NCLTRAGDFHINNEGFLENVAGGVLLGYPLKNASAPLIVNSFQGLER 146 (421)
Q Consensus 79 ~-----------~~d~a~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 146 (421)
T Consensus 81 ~~~s~~~~~~~~~~~~l~~~e~~~~~~~~~~~~sl~~~L~~Ff~al~~l~~~P~~~~~r~~~~~~~~~la~~~n~~~~~L 160 (495)
T TIGR02492 81 RANSSAGGYADSRASSLSKIEQIFNDTDESGLGSLSTDLNNFFNALQELAKNPDSEALRQAVLESAQALANQFNQTSSEL 160 (495)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 87755678999999999999986168887754462889989999999997087887899999999999999999999999
Q ss_pred CCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCC---CCCCCCCCCCCEEEEEEECCCCEEEEEEEECCCCCC
Q ss_conf 444445545433321123310245544444444445---677654322210367540688736778762135555
Q gi|254780525|r 147 INVKHAELSAMPTTTGFISNNLDKNATIITPDKTPK---HNGRDAEYTHKSSFAAYDTLGSSVVYDVYYTKTGDK 218 (421)
Q Consensus 147 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~ 218 (421)
T Consensus 161 ~~~~~~~~~~i~~~V~~iN~l~~~ia~~N~~I~~~~g~~~~g~~andL~DqRD~ll~~Ls~~~~i~~~~~~~G~~ 235 (495)
T TIGR02492 161 TDLQKNINAEIKSAVTEINSLLKQIASLNKEIQQVEGGKASGQDANDLLDQRDLLLKELSQLIGISVSENEDGTV 235 (495)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEECCCCE
T ss_conf 999975655788999999999999998768864002787787776778744999999988672603788268856