HHsearch alignment for GI: 254780519 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=92.90  E-value=0.59  Score=24.06  Aligned_cols=85  Identities=16%  Similarity=0.292  Sum_probs=78.4

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999999999999999999999999-99988465369889999999999999999999999999999999
Q gi|254780519|r    4 ADVLEIARAAMWTILSSSAPVLFSAMFLGILIAFL-QALTQIQEVTLTFVPKIIAVFITLIISAPFIGGQISSFVTLVLS   82 (88)
Q Consensus         4 ~~vi~l~~~al~~~l~ls~P~Ll~alvvGl~Isi~-QA~TQIQEqTLsFvPKliav~~~l~~~~pwm~~~l~~f~~~if~   82 (88)
T Consensus       163 ~~~~~~~~~~F~~gl~~a~P~~~~lLl~nl~~G~~~R~~PQ~N~F~iG~Pl~~~~Gl~ll~~~~p~~~~~~~~~~~~~~~  242 (248)
T TIGR01400       163 ELILKALSDMFLLGLLLALPIIAALLLINLVLGLVNRAAPQLNIFSIGFPLKILLGLILLYLILPVIASLFKKLFEELLE  242 (248)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999999999999879999999999999999877579999999855999999999999999999999999999999


Q ss_pred             HHHHCC
Q ss_conf             934409
Q gi|254780519|r   83 RIQSSL   88 (88)
Q Consensus        83 ~ip~~i   88 (88)
T Consensus       243 ~~~~l~  248 (248)
T TIGR01400       243 ALAELL  248 (248)
T ss_pred             HHHHHC
T ss_conf             999729