HHsearch alignment for GI: 254780687 and conserved domain: TIGR02480
>TIGR02480 fliN flagellar motor switch protein FliN; InterPro: IPR012826 Proteins that consist largely of this domain can be designated flagellar motor switch proteins: FliN. Longer proteins in which this region is a C-terminal domain typically are designated FliY. More distantly related sequences, outside of this family, are associated with type III secretion systems (TTSS) and include the surface presentation of antigens protein SpaO required or invasion of host cells by Salmonella enterica.; GO: 0001539 ciliary or flagellar motility, 0006935 chemotaxis, 0016020 membrane, 0044461 flagellin-based flagellum part.
Probab=99.70 E-value=9.5e-17 Score=129.04 Aligned_cols=74 Identities=24% Similarity=0.300 Sum_probs=71.0
Q ss_pred HHHHHCEEEEEEEEEEEEECHHHHHCCCCCCEEECCCCCCCEEEEEECCEEEEEEEEEEECCEEEEEEEECCCC
Q ss_conf 99740800799998123430989945799978982578997389999999999999987889789999842581
Q gi|254780687|r 233 RKTYQLNVNIDTRINLKKTTLKDVVTLKIGQVIPFLHREKTCAILSANGKEIYSCELGRVGKNYTIRITDRINF 306 (318)
Q Consensus 233 ~~l~~~~v~i~a~Lg~~~l~l~dil~L~vGDVI~L~~~~~~~v~v~v~g~~~f~g~~G~~~~~~AVrI~~~i~~ 306 (318)
T Consensus 3 ~~~~Dipv~l~velG~~~i~l~dll~l~~GsVieLDk~agepldI~VNG~~ia~GEvvV~~dk~Giri~ei~~~ 76 (77)
T TIGR02480 3 DLILDIPVELTVELGRTRITLKDLLKLGEGSVIELDKLAGEPLDILVNGRLIARGEVVVVEDKFGIRITEIVDS 76 (77)
T ss_pred CCEEECCEEEEEEEEEEEECHHHHHCCCCCCEEEECCCCCCEEEEEECCCEEEEEEEEEECCCEEEEEEEEECC
T ss_conf 84110105888888656603688843899849996477889215988892788898998679600898985417