HHsearch alignment for GI: 254780529 and conserved domain: COG1360

>COG1360 MotB Flagellar motor protein [Cell motility and secretion].
Probab=100.00  E-value=0  Score=352.68  Aligned_cols=238  Identities=32%  Similarity=0.517  Sum_probs=171.8

Q ss_pred             EEEECCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCC-CCCCCCCCCCCCCCC
Q ss_conf             9982168888788743188799999999999999999750899999999998535543203665-555555676776666
Q gi|254780529|r   17 IKKKVAIDDTPNNLGSWKIVYADFMTVLMAFFLVMWIINATDDDTKKAIEQYFNPFGKNLMTAS-KGIFDEQNPPERSSQ   95 (343)
Q Consensus        17 ikr~~~~~~~~~~~~~W~vtyAD~~TlLmaFFvll~s~s~~d~~k~~~i~~~f~p~~~~~~~~~-~~~~~~~~~~~~~~~   95 (343)
T Consensus         2 ~~r~k~~~~--~~~~~w~~~yad~~tl~~~ffi~~~~~s~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~----------   69 (244)
T COG1360           2 AKKKKEEEQ--HGGGAWKIAYADFMTLLLAFFIVLWAMSSISPEKFQQIAAYFRIAFSGAPGSASEGGKS----------   69 (244)
T ss_pred             CCCCCCCCC--CCCCCCCEECCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCC----------
T ss_conf             722026678--88852012547578899999999986301578889999997303014565554445432----------


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCCCCCCCC
Q ss_conf             65544455566766656566776655443211222111233211111222223343222222200123210011100124
Q gi|254780529|r   96 NKIDLSIDEHITKNSVDLKIGSTNQKKQYQRLENNIFYLSNSQQSEHCKNSLTRDSEKGKDLCKSTDLEKSINKEENYFL  175 (343)
Q Consensus        96 ~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  175 (343)
T Consensus        70 -----------~~~~~~------------------------------------------~~~~~~~~~~-----------   85 (244)
T COG1360          70 -----------MQQVKE------------------------------------------KELAEELNVG-----------   85 (244)
T ss_pred             -----------HHHCCC------------------------------------------CCCCCCCCHH-----------
T ss_conf             -----------001010------------------------------------------0122453467-----------


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCEEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHH
Q ss_conf             65213578878889999999999999975553321013114511453499997034567455568754683565654436
Q gi|254780529|r  176 PPLSKEKILAMKRKKRLQDLAKKISSTLSGLVADNIVKGVLFETTRTGILISIIDQRNTPMFDKSSSIPLPETIVVLQKI  255 (343)
Q Consensus       176 ~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~v~~~~~~i~I~i~d~~~~~lF~~gsa~l~~~~~~~l~~i  255 (343)
T Consensus        86 -----~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~v~~~~~gl~i~i~~~---~~F~~gsa~~~~~~~~~l~~i  154 (244)
T COG1360          86 -----EAIEKKELSEKLGDLAKELESKPKD---IELEHQLGVDDVEEGLVISISDS---LMFASGSAVVQPEFRDLLLKI  154 (244)
T ss_pred             -----HHHHHHHHHHHHHHHHHHHHHHHHH---HHHHCCCEEEECCCCEEEEEECC---CCCCCCCCCCCHHHHHHHHHH
T ss_conf             -----7876522366679999999989888---77534655887488628996244---464677521276679999999


Q ss_pred             HHHHHHCCC-CEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHCC-CCHHHEEEEEECCCCCCCCCCCCC--CCCC
Q ss_conf             789861278-338987314676678741069999999999999999869-996571225630334888898852--1337
Q gi|254780529|r  256 GEVLAHSTE-VISIRGHTDASPFRNIARDNWRLSLDRAYSAYQVLMKSG-VSEDRISKISGFAHHRLKIASDPM--NSAN  331 (343)
Q Consensus       256 a~~l~~~~~-~i~IeGHTD~~p~~g~~~~Nw~LS~~RA~aV~~~L~~~G-v~~~ri~~v~G~g~~~P~~~n~t~--~~~N  331 (343)
T Consensus       155 a~~l~~~~~~~I~I~GHTDn~p~~~~~~sNWeLS~aRA~~v~~~L~~~g~~~~~~~-~~~G~gd~~Pva~n~t~~~ra~N  233 (244)
T COG1360         155 AKLLADIPNGNIRIEGHTDNVPIKGSFYSNWELSAARAQSVVRVLINGGLVEAKRL-SVVGYADTRPLADNDTAEGRAKN  233 (244)
T ss_pred             HHHHHHCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEE-EEEECCCCCCCCCCCCHHHHHHC
T ss_conf             99987267982899865899766778885088899999999999997489985668-99712547767889881347657


Q ss_pred             CEEEEEEECCC
Q ss_conf             55999995699
Q gi|254780529|r  332 RRIDILVEDRQ  342 (343)
Q Consensus       332 RRVEi~i~~~~  342 (343)
T Consensus       234 RRVeI~i~~~~  244 (244)
T COG1360         234 RRVEILILTKK  244 (244)
T ss_pred             CEEEEEEECCC
T ss_conf             83799983589