HHsearch alignment for GI: 254780334 and conserved domain: cd01136

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway.
Probab=97.68  E-value=0.0023  Score=44.08  Aligned_cols=107  Identities=19%  Similarity=0.210  Sum_probs=65.3

Q ss_pred             CCCCCCCCHHHHHHHCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHHHC---CCCCC
Q ss_conf             663237812488886598578708999549875188999999999850398199998646304788887520---15775
Q gi|254780334|r   69 ESRIQTHIDELDRVTGGGFVRGSVILVGGDPGIGKSTLLMQTAASLAYKKHRITYVSGEEAIGQIRLRAQRL---NTINS  145 (479)
Q Consensus        69 ~~Ri~TGi~eLDrvLGGGl~~Gs~~Li~G~PGvGKSTL~Lqia~~~a~~g~~vlYvS~EEs~~Qi~~Ra~Rl---~~~~~  145 (479)
T Consensus        50 ~e~l~TGI~~ID~l~--pigrGQR~~Ifg~~g~GKt~Ll~~i~~~~~-~-~v~V~~~IGer~rev~e~~~~~~~~~~l~~  125 (326)
T cd01136          50 DEVLPTGVRAIDGLL--TVGKGQRLGIFAGSGVGKSTLLGMIARGTT-A-DVNVIALIGERGREVREFIEKDLGEEGLKR  125 (326)
T ss_pred             CCCCCCCCCHHCCCC--CCCCCCEEEEECCCCCCCCHHHHHHHHCCC-C-CEEEEEEECCCHHHHHHHHHHHHCCCCCCC
T ss_conf             875115770420026--624798787436999984667876864146-7-759999605338899999998624565322


Q ss_pred             CHHEECCCC---HH---------HHHHHHHHCCCCCEEEECHHHHH
Q ss_conf             100003478---89---------99999973169828997216876
Q gi|254780334|r  146 SVYIAIETN---VE---------DIIATLITNEKPDLVIIDSIQTL  179 (479)
Q Consensus       146 ~i~~~~e~~---l~---------~il~~~i~~~~~~~vVIDSIQtl  179 (479)
T Consensus       126 tvvv~atad~~~~~r~~a~~~a~~~AEyfrd~G~dVL~~~Dsltr~  171 (326)
T cd01136         126 SVVVVATSDESPLLRVKAAYTATAIAEYFRDQGKDVLLLMDSLTRF  171 (326)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHH
T ss_conf             2899606889989999988877777889997587337875246899