HHsearch alignment for GI: 254780810 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=100.00  E-value=0  Score=568.05  Aligned_cols=291  Identities=25%  Similarity=0.252  Sum_probs=275.3

Q ss_pred             ECCCCCCCCCCEEECCCCCCCHHHHHCCCCHHHCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCEEEECCCCC
Q ss_conf             24688876300022225568878851244300020001122343247786532136888998865510231222048778
Q gi|254780810|r  106 APREGERYFALLKVNAINFDVPERVRNKIHFDNLTPLYPDKRFNMELNNPENKDISSRVIDLIAPIGKGQRSLIVAPPRT  185 (423)
Q Consensus       106 ~~~~~~~~~~L~rV~~vnG~~~d~~~~~~~f~~l~p~~p~~~i~le~~~~~p~~~~~~~id~~~pig~gqr~~i~~~~~~  185 (423)
T Consensus         1 Pl~vpVg~~lLGRVid~~G~PiDg~~~i~~~~~~pi~~~ap~~~~R~~v~e~l~TGI~~ID~l~pigrGQR~~Ifg~~g~   80 (326)
T cd01136           1 PLSVPVGDALLGRVLDAFGEPLDGKGPLGKEVRYPLLRTPPNPLKRRPIDEVLPTGVRAIDGLLTVGKGQRLGIFAGSGV   80 (326)
T ss_pred             CCEEECCCCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCCCCHHCCCCCCCCCCCCCHHCCCCCCCCCCEEEEECCCCC
T ss_conf             96535576651747678834157999999986152568995803307888751157704200266247987874369999


Q ss_pred             CHHHHHHHHHHHHHHCCCCCEEEEEECCCCHHHHHHHHHHH-------CCEEEECCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf             78999999999986118864699995087878999999840-------34278236678888999999999999999997
Q gi|254780810|r  186 GKTILLQNIAHSIKKNHPECYLIVLLIDERPEEVTDMQRSV-------QGEVISSTFDESAARHVQVAEMVIAKAKCLVE  258 (423)
Q Consensus       186 gkt~ll~~ia~~~~~~~~~v~~i~~ligEr~~ev~e~~~~~-------~~~vv~st~d~~~~~~~~~a~~a~~~a~~~~e  258 (423)
T Consensus        81 GKt~Ll~~i~~~~~~~----v~V~~~IGer~rev~e~~~~~~~~~~l~~tvvv~atad~~~~~r~~a~~~a~~~AEyfrd  156 (326)
T cd01136          81 GKSTLLGMIARGTTAD----VNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVKAAYTATAIAEYFRD  156 (326)
T ss_pred             CCCHHHHHHHHCCCCC----EEEEEEECCCHHHHHHHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             8466787686414677----599996053388999999986245653222899606889989999988877777889997


Q ss_pred             CCCCEEEEEECHHHHHHHHHCCCCCCCCCCC-CCCCHHHHHHCHHHHHCCCCCCCCCCCEEEEEEEECCCCCCCCHHHHH
Q ss_conf             7992899981638987762001366777677-752024665046875225777777850012112012676554138898
Q gi|254780810|r  259 YGLDVVILLDSITRLCRAYNVLMPSSGKILT-GGVDANALQRPKRFFGAARNIKEGGSLTIIGTALVDTGSRMDEVIFEE  337 (423)
Q Consensus       259 ~G~dVll~~DslTR~ArA~~~~~~~~g~~~~-gg~~~~~l~~~~~~~~~ar~~~~~Gs~T~~~t~lvetg~~~d~~i~~~  337 (423)
T Consensus       157 ~G~dVL~~~Dsltr~A~A~rEisl~~g~~P~~~gyp~~~f~~~~~l~ERag~~~-~GSIT~i~~v~~~-~dd~tdpi~~~  234 (326)
T cd01136         157 QGKDVLLLMDSLTRFAMAQREIGLAAGEPPTTKGYPPSVFALLPRLLERAGNSD-KGSITAFYTVLVE-GDDLNEPIADA  234 (326)
T ss_pred             CCCCEEEEECCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCC-CCCEEEEEEEECC-CCCCCCCCHHH
T ss_conf             587337875246899999999888648998756677668888789888641799-9852444578705-98878862788


Q ss_pred             HHHCCCCEEEEEHHHHHCCCCCCCCCCCCCCCCHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHH
Q ss_conf             85226607898087884799974053354221015519999999999999996126937899999
Q gi|254780810|r  338 FKGTGNSEIVLERKIADKRIFPAMDIIKSGTRKEDLLVERQDLQKVFMLRRIVSSMNSSDAIEFL  402 (423)
Q Consensus       338 ~~~~~d~~i~L~r~la~~~~~PAId~~~S~sR~~~~l~~~~~~~~~~~~r~~l~~~~~~e~~~~l  402 (423)
T Consensus       235 ~~~i~Dg~ivLsr~La~~g~~PAIDv~~S~SR~~~~~~~~~~~~~a~~~r~~l~~y~e~~~li~~  299 (326)
T cd01136         235 VRSILDGHIVLSRALAAAGHYPAIDVLKSISRLMNAVVTPEHKEAARKLRELLSAYQEVEDLIRI  299 (326)
T ss_pred             HHHHCCEEEEECHHHHHCCCCCCCCCCCCHHHCCHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             98754738998588996799997488627533660006799999999999999989999999985