HHsearch alignment for GI: 254780689 and conserved domain: TIGR00207
>TIGR00207 fliG flagellar motor switch protein FliG; InterPro: IPR000090 The flagellar motor switch in Escherichia coli and Salmonella typhimurium regulates the direction of flagellar rotation and hence controls swimming behaviour . The switch is a complex apparatus that responds to signals transduced by the chemotaxis sensory signalling system during chemotactic behaviour . CheY, the chemotaxis response regulator, is believed to act directly on the switch to induce tumbles in the swimming pattern, but no physical interactions of CheY and switch proteins have yet been demonstrated. The switch complex comprises at least three proteins - FliG, FliM and FliN. It has been shown that FliG interacts with FliM, FliM interacts with itself, and FliM interacts with FliN . Several residues within the middle third of FliG appear to be strongly involved in the FliG-FliM interaction, with residues near the N- or C-termini being less important . Such clustering suggests that FliG-FliM interaction plays a central role in switching. Analysis of the FliG, FliM and FliN sequences shows that none are especially hydrophobic or appear to be integral membrane proteins . This result is consistent with other evidence suggesting that the proteins may be peripheral to the membrane, possibly mounted on the basal body M ring , . FliG is present in about 25 copies per flagellum. This structure of the C-terminal domain is known, this domain functions specifically in motor rotation .; GO: 0003774 motor activity, 0001539 ciliary or flagellar motility, 0006935 chemotaxis, 0009288 flagellin-based flagellum.
Probab=100.00 E-value=0 Score=635.35 Aligned_cols=323 Identities=27% Similarity=0.444 Sum_probs=308.3
Q ss_pred HHCCHHHHHHHHHHHHCCHHHHHHHHHCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCC-CCCHHHHHHHH
Q ss_conf 23686879999999838146899985199999999999986138999899999999999998510456-65348899997
Q gi|254780689|r 20 VSLTQKDKATAILLAMEKQVSGKLLRHFTHAELKEIVASAKLLPEISPEELEDIIDEFESQFIAGIGL-TENSKNIESIL 98 (345)
Q Consensus 20 ~~Ltg~eKAAilLl~LGee~Aa~ilk~l~~~Ei~~i~~~m~~l~~i~~~~~~~vl~EF~~~~~~~~~~-~g~~~~~~~lL 98 (345)
T Consensus 14 ~~Ltg~~K~aILL~~iG~d~~a~vfkhL~~~ei~~Ls~~i~~l~~i~~~~~~~VL~EF~~~~~~~~yi~~gg~~YaR~lL 93 (346)
T TIGR00207 14 DELTGKQKAAILLISIGEDVSAEVFKHLSQEEIEELSAEIAKLEQIDKQQKDDVLEEFEEIAEAQEYINKGGLDYARELL 93 (346)
T ss_pred HHCHHHHHHHHHHHHHCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_conf 42104567888877722214557864178889999999988532234888789999999999999988506378999998
Q ss_pred HHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHCCCHHHHHHHHHCCCHHHHHHHHHHCCHHHHHHHHHHCCHHHHHHHHHH
Q ss_conf 61149799999975441134456756789741998999999840386478899995788899999983798999999999
Q gi|254780689|r 99 EEGLEQNELEKLLNKSDISQENNNSIWDHLKETDPGVIADFLSKEHPQTTAYVLSMMPPSIGASVLLRFPNKIHADIMKR 178 (345)
Q Consensus 99 ~~al~~d~a~~ll~~~~~~~~~~~~~~~~L~~~~~~~La~~L~~EhPQtiAlILs~L~~~~Aa~VL~~Lp~e~r~ev~~R 178 (345)
T Consensus 94 ~kaLG~e~A~~~l~~l~-~slq~~~~f~~~~~~~P~~~~dfI~~EHPQtiAlIL~hL~~~~Aa~iLs~l~~e~~~~v~~R 172 (346)
T TIGR00207 94 EKALGEEKAKKILNKLT-SSLQTKPGFEFLRKAEPQQIADFIQQEHPQTIALILSHLDPAQAAEILSLLPEEVQAEVARR 172 (346)
T ss_pred HHHCCHHHHHHHHHHHH-HHHCCCCCHHHHHCCCHHHHHHHHHCCCHHHHHHHHHHHCHHHHHHHHHCCCHHHHHHHHHH
T ss_conf 86141589999999888-75316311567631586889987750586799999985183047888730685689999999
Q ss_pred HHHCCCCCHHHHHHHHHHHHHHHCCCCC---CCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHH
Q ss_conf 8404899989999999999997223442---1236378999995017757799999999986599999999741578998
Q gi|254780689|r 179 TVNLPKISPYIQKTIEKCIVEMLPQSNS---NTSTGPEKVANLINELEKPQVDKLLTSLQEVSKEAFDKVRPKVFLFDDL 255 (345)
Q Consensus 179 ia~l~~v~~ev~~~ie~~L~~~l~~~~~---~~~~G~~~vA~Iln~l~~~~~~~iL~~L~~~d~~la~~Ir~~mF~FeDl 255 (345)
T Consensus 173 iA~~g~~sP~vv~ev~~VLe~kL~s~~~~~~~~~GGv~~vaEi~N~~~~~~ek~~l~~~e~~D~~LA~~Ik~~MF~FEdi 252 (346)
T TIGR00207 173 IAVMGRTSPEVVKEVERVLEKKLESLTSEDYTKVGGVRAVAEIINLLDRKTEKTILESLEEVDPELAEEIKKKMFVFEDI 252 (346)
T ss_pred HHHCCCCCHHHHHHHHHHHHHHHCCCCHHHHHHCCCHHHHHHHHCCCCCCHHHHHHHHHHHHCHHHHHHHHHHCCCHHHH
T ss_conf 98507867899999999997762244212355416257899987357871599999999831847899999723640115
Q ss_pred HCCCHHHHHHHHHCCCHHHHHHHHCCCCHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHC
Q ss_conf 50997899999830988899998538898999999961008999999999850058999899999999999999999986
Q gi|254780689|r 256 ITLSSHDLSIVFNNISLEVLGKALHGTSIETQNAILHCLSNRQRKIIEENIVLNDSSIAPREVAMARRSIVQEAISLLKT 335 (345)
Q Consensus 256 ~~l~~~~l~~ll~evd~~~l~~ALkga~~e~~e~il~nmS~Ra~~~l~eel~~~~g~v~~~dve~Aq~~I~~~~r~L~~~ 335 (345)
T Consensus 253 V~lDdraIqr~L~~vd~~~L~~ALK~~~~~l~ek~l~NMS~Raa~~l~edm~fl-Gpvr~kdVe~~Q~~I~~iVr~L~E~ 331 (346)
T TIGR00207 253 VKLDDRAIQRVLREVDKEDLLLALKTAEKPLREKFLNNMSQRAAEILKEDMEFL-GPVRLKDVEEAQKKIVSIVRKLEEK 331 (346)
T ss_pred HHHCCHHHHHHHHHHCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHC-CCCCHHHHHHHHHHHHHHHHHHHHC
T ss_conf 430308999999984335567785126624788986315489999999988726-8844024589999999999866117
Q ss_pred CCEECCCCC
Q ss_conf 979518888
Q gi|254780689|r 336 NKIELSNPI 344 (345)
Q Consensus 336 G~I~l~~~~ 344 (345)
T Consensus 332 GEiVI~~Gg 340 (346)
T TIGR00207 332 GEIVIQRGG 340 (346)
T ss_pred CCEEEECCC
T ss_conf 605760478