HHsearch alignment for GI: 254780511 and conserved domain: TIGR01400

>TIGR01400 fliR flagellar biosynthetic protein FliR; InterPro: IPR006303 These sequences represent the FliR protein of bacterial flagellar biosynthesis. It distinguishes FliR from the homologous proteins bacterial type III protein secretion systems, known by names such as YopT, EscT, and HrcT.; GO: 0015031 protein transport, 0016021 integral to membrane, 0019861 flagellum.
Probab=100.00  E-value=0  Score=384.53  Aligned_cols=237  Identities=28%  Similarity=0.524  Sum_probs=227.9

Q ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999998552788862889999999999999952144456000122068999999999999999999999
Q gi|254780511|r   10 MSLFLIVCRVGSCIMLLPGLSMSYIPMQVRLCFAMAFSIVLLPFLWDTIDLQNFVNRAYYSKLVMVELFLGCVHGLLIRV   89 (248)
Q Consensus        10 ~~f~li~~Ri~~~~~~~P~f~~~~iP~~vr~~l~l~ls~~~~p~v~~~~~~~~~~~~~~~~~l~l~E~~iGl~lG~~~~i   89 (248)
T Consensus         2 ~~~~l~~~R~~a~l~~~P~fs~~~vP~~vR~~lal~~~~~~~p~l~~~~~-~~~~~~~~~~~~~~~E~l~G~~~G~~~~~   80 (248)
T TIGR01400         2 STFFLVFVRVGAFLMTMPFFSERLVPVRVRLYLALALTFIVLPFLPPTPG-QVNLFSLFFVLLLLQEILIGLLIGFILQL   80 (248)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCCCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             56899999999999971664234054068999999999999845100345-20011799999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCHHHHHH-HHHHHHHHCCCCCCCCCH--H
Q ss_conf             9999999999999987542220268888753016999999999999999451899999-999999755566556857--9
Q gi|254780511|r   90 YTLGLQFTGSVISTAIGLNLQTSMGISDSLAETPLNSLIGIIGLLALWVIDFHHQVFY-ALVKSYGTIPIGQELNFG--N  166 (248)
Q Consensus        90 ~f~a~~~AG~~id~q~Gls~a~~~dP~~~~~~~~~~~l~~~~~~~lF~~~ggh~~li~-~l~~Sf~~iP~g~~~~~~--~  166 (248)
T Consensus        81 ~f~a~~~AG~~I~~~~GLg~A~~~dp~~~~~~p~~~~~l~~lall~FL~~~gh~~~i~~~l~~S~~~~P~g~~~~~~~e~  160 (248)
T TIGR01400        81 LFAAFVLAGEIISFQMGLGFASMVDPSSGEQTPVLGQILYLLALLLFLALDGHHLLILIGLVDSFKSLPVGSFFLNGSEN  160 (248)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCCCCCHH
T ss_conf             99999999999998898899876312356661289999999999999984648999999999776540367666786148


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999999999999999999999999999853325489999999999999999999999999999999950
Q gi|254780511|r  167 IFSSFVNMLQTTFMIMLRLSSPFLFFYIVFNISIGLLNKLVPQIPIYFISTPYLIGLGSLFLCLSIEIIVYQFSHSFLYG  246 (248)
Q Consensus       167 ~~~~~~~~~~~~f~~al~lA~P~i~~lll~~i~lgil~R~aPQlnvf~vg~piki~ig~~~l~l~l~~~~~~~~~~f~~~  246 (248)
T Consensus       161 ~~~~~~~~~~~~F~~gl~~a~P~~~~lLl~nl~~G~~~R~~PQ~N~F~iG~Pl~~~~Gl~ll~~~~p~~~~~~~~~~~~~  240 (248)
T TIGR01400       161 LFELILKALSDMFLLGLLLALPIIAALLLINLVLGLVNRAAPQLNIFSIGFPLKILLGLILLYLILPVIASLFKKLFEEL  240 (248)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999999999998799999999999999998775799999998559999999999999999999999999999


Q ss_pred             C
Q ss_conf             4
Q gi|254780511|r  247 F  247 (248)
Q Consensus       247 f  247 (248)
T Consensus       241 ~  241 (248)
T TIGR01400       241 L  241 (248)
T ss_pred             H
T ss_conf             9