HHsearch alignment for GI: 254780695 and conserved domain: TIGR00206

>TIGR00206 fliF flagellar M-ring protein FliF; InterPro: IPR000067 This family corresponds to the FliF protein. FliF is the major protein of the M-ring in bacterial flagellar basal body . The basal body consists of four rings (L,P,S and M) surrounding the flagellar rod, which is believed to transmit motor rotation to the filament . The M ring is integral to the inner membrane of the cell, and may be connected to the rod via the S (supramembrane) ring, which lies just distal to it. The L and P rings reside in the outer membrane and periplasmic space, respectively. FliF lacks a signal peptide and is predicted to have considerable alpha-helical structure, including an N-terminal sequence that is likely to be membrane-spanning . Overall, however, FliF has a relatively hydrophilic sequence, with a high charge density, especially towards its C-terminus .; GO: 0003774 motor activity, 0001539 ciliary or flagellar motility, 0009431 flagellin-based flagellum basal body MS ring.
Probab=100.00  E-value=0  Score=388.92  Aligned_cols=538  Identities=26%  Similarity=0.342  Sum_probs=398.2

Q ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHCCC------CCEEECCCCCHH-HHHHHHHHHHHCCCCEEECCCCC
Q ss_conf             99998640698788999999999999999999984699------824503899989-99999999997799299918997
Q gi|254780695|r    9 QFFKSGTSLGRTRILILASVILVPIMLFMAARFFVNSP------HYDNLYVKLEVS-DVNRISVALSEANIDFRISDNGS   81 (563)
Q Consensus         9 ~~~~~~~~l~~~~ki~~~~~~~~~i~~~~~~~~~~~~p------~y~~L~~~l~~~-d~~~i~~~L~~~gI~y~~~~~g~   81 (563)
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~   90 (611)
T TIGR00206        11 KALEFFKKLSKLQKIALILAGAAVIALLVFLLLFASKSKDYTQGGYALLFEGLSDEYDGGLILEELDQENVPYKLSEDGG   90 (611)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHCHHHHHHHHHHHHHHHHHCCCCEECCCCC
T ss_conf             67888876431114678999999999999987520343100134202222010124456788887765305510026872


Q ss_pred             EEEECHHHHHHHHHHHHHCCCCCCCCCCHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEECCC
Q ss_conf             79951899999999999769988776632565305888425999999999999999999999605763148999983366
Q gi|254780695|r   82 SISVPSSMVGKARIHLAAQGLPSSSSNSGYELFDKVNSFGLTSFMQEITRVRALEGEIARTIQSISGIVAARVHIVMPDM  161 (563)
Q Consensus        82 ~I~Vp~~~~~~~r~~La~~glp~~~~~~g~el~d~~~~~g~T~~~~~~~~~ralegeL~rtI~~~~~V~~ArV~l~~p~~  161 (563)
T Consensus        91 ~~~~p~~~~~~~~~~~~~~g~p~~~~-~~~~~~~~~~g~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~  169 (611)
T TIGR00206        91 VILVPEDKVDELRLTLAAEGLPKTGS-VGFELFDQDKGFGLTDFEEDINLVRALEGELSRTIEALDPVKGAKVHLALPKD  169 (611)
T ss_pred             EEECCHHHHHHHHHHHHHHCCCCCCC-CCCHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCH
T ss_conf             34132666778888776522554444-54011024356632201345667777777888888751220002034423630


Q ss_pred             CCCCCC-CCCCCEEEEEECCCC--CCHHH--HHHHHHHHHHHHHCCCCCCEEEEECCCCEEEC-CCCC----CCCCHHHH
Q ss_conf             655555-558715999706877--89889--99999999865401883526998289835003-6765----33324799
Q gi|254780695|r  162 GSFRKI-GARPTASVMIRAINP--SVYKS--AEAIRHLVAAAVPNLDMGDVTVLDSTGKLLTA-NEME----RNILGKSL  231 (563)
Q Consensus       162 ~~f~~~-~~~~sASV~l~~~~~--l~~~q--v~~I~~lVa~sV~gL~~e~VtVvD~~G~~L~~-~~~~----~~~~~~~~  231 (563)
T Consensus       170 ~~~~~~~~~~~~~~~~~~~~pg~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~  249 (611)
T TIGR00206       170 ALFVGEEQEPPSASVVLKLKPGSDLDPGQKKIEGLVHLVSAAVPGLPPDNVALVDENGTLLGEFSDLDGGDGKDLADKQL  249 (611)
T ss_pred             HHHHCCCCCCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCHHCCCCCCCCCHHHHHHHHH
T ss_conf             22200000233220577415775211025788999999987622676454367506752000000100111134456666


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCCE-EEEEEEEEEECCCEEEEEEEECCCCC-----------------CCCCEEEEEE
Q ss_conf             99999999999999988775408780-69998844322301678885147877-----------------6542157763
Q gi|254780695|r  232 SIVQAIQHEIEMNINKALAAFLGVDN-FRSAVVAELNMDTQQIREIVYDPDSK-----------------VERSIRLSKD  293 (563)
Q Consensus       232 ~~~~~~E~~~~~kI~~~L~~i~G~~~-v~v~V~~~ldfd~~~~~~e~y~p~~~-----------------~~~s~~~~~~  293 (563)
T Consensus       250 ~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~d~~~~~~~~~~~~p~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~  329 (611)
T TIGR00206       250 KYKSDVEGDLEGEIESLLSPILGGDNFVVARVNAELDFSKEETTEEEYEPNGLENQDPKASYNTRKVSDGVLRSAQLLEE  329 (611)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEEECCCCCCCCCCHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             66666777888889988776523673378875200012200000122034543344531000024555666665554323


Q ss_pred             ECCCCCCCC-CCCCCCCCCCCCCCC--CC-----CCCCCCC---------CCCCCCCEEEEECCCCEEEEEEECCCCCCC
Q ss_conf             025667777-777877777787666--66-----6777666---------655443103421056179999707851001
Q gi|254780695|r  294 AQRSETSQP-ESAVTVEQNMPHVSD--RK-----VPLPRSL---------ENTDKKEEQSNYEINTKSIATTHDNYKLER  356 (563)
Q Consensus       294 ~~~s~~~~~-~G~pG~~sN~p~~~~--~~-----~~~~~~~---------~~~~~~~~t~NYev~~t~~~~~~~~G~I~r  356 (563)
T Consensus       330 ~~~g~g~~~~gg~pg~~~~~p~p~~~~~~~~~~~~~~~~~~~~~~~~~~gp~~~~~~~~~~~~~~~~~~~~~~~~g~~~~  409 (611)
T TIGR00206       330 EYEGDGYPPVGGPPGAGGNQPAPTPNPPVQGLKDNGGNKEPGKYEKNNSGPRSTQLNEKSNYEVGRTIREIKGSLGDLVD  409 (611)
T ss_pred             HHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHCCCCCCCHHHCCCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf             32156655467667655556677787655665433443331010003555310000110010001245665301233332


Q ss_pred             CEEEEECCCCCC-CCCCCC--CCCCCCCHHHHHHHHHHHHHHCCCCCCCCCEEEEEECCCCC--CCCCCCCCCCCCHHHH
Q ss_conf             025653054324-566655--55334698999999998643125661138768998503566--5434344456204589
Q gi|254780695|r  357 LSIAVVVNKGRL-TEVLGR--SADQGKIDSYLAEINKIVSAATGINSRRGDTITITSMDFLE--NQLFNSGTVQVSFMDI  431 (563)
Q Consensus       357 lSVAV~Vn~~~~-~~~~g~--~~~~~~~~eel~~I~~lV~~AiG~d~~RGD~VtV~~~~F~~--~~~~~~~~~~~~~~~~  431 (563)
T Consensus       410 ~~~~~~~~~~~~~~~~~g~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~gd~~~~~~~~~~~~~p~~~~~~~~~~~~~~~  489 (611)
T TIGR00206       410 LGWAVVVDGKGDFALPDGKNKLEYLPLSLEELKDIEDLLKEAVGYSPDRGDSLTVRNLSFNPLAPVINNETGGELPPFDG  489 (611)
T ss_pred             HHEEEEECCCCCCCCCCCCHHHHCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCEECCCCCCCCCCHHHHHHHHHHHHHHH
T ss_conf             00124551543302543200100011004567889999988751121245410001354211110010012221122223


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             99999999999999999999999999977875201122100011221233433321000001222100013343333444
Q gi|254780695|r  432 LSRHFATVINALVFLVGTLLVTFLGLHALRRLHNIDDAKKGEVGGKSILSPPPISSAVTTGLMPNDNIALDSSNQDIFSH  511 (563)
Q Consensus       432 ~~~~~~~~~~~~~~~l~~lll~~~vl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  511 (563)
T Consensus       490 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~  562 (611)
T TIGR00206       490 -EKFLDSLTPASKWLLLLLLAFLLGGKLIRPLLERRLELVPELDKQADL------REEEEDEVEGELIKLPDLNKKVEDQ  562 (611)
T ss_pred             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHCCCCCCCCHHHHHHHHHH
T ss_conf             -556666677889999999999998889999999999875677777888------7777653033113302466665444


Q ss_pred             C-CCCHHHCCCCCHHHHHHHHHHHHHHCH----HHHHHHHHHHHHHHH
Q ss_conf             4-431010021100689999999988699----989999999986378
Q gi|254780695|r  512 S-RNLQSRINSYVSKQSDLRLLHMIEINE----ERFAKILRKWARSEI  554 (563)
Q Consensus       512 ~-~~~~~~~~~~~~~~~~~~i~~lv~e~P----e~vA~vLR~WL~ee~  554 (563)
T Consensus       563 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~w~~~~~  610 (611)
T TIGR00206       563 GGLNEGLEEEEVRYEVSLEELRGLLKEKPDEIAEDFALLLRDWLLEDG  610 (611)
T ss_pred             HHHCCCCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCC
T ss_conf             320033204678999999999875214615689999999999862048