HHsearch alignment for GI: 254780721 and conserved domain: COG1955

>COG1955 FlaJ Archaeal flagella assembly protein J [Cell motility and secretion / Intracellular trafficking and secretion].

Probab=99.12  E-value=3.1e-07  Score=66.01  Aligned_cols=120  Identities=12%  Similarity=0.125  Sum_probs=99.2

Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHC
Q ss_conf             9999999999999999999999999997-499689999999984077877899999999999965999899999999863
Q gi|254780721|r  168 ISNLVQKRQSSIKRAWPDALDLLLICVE-SGISIDQALRRVAEDIGGQSVPLSEEMLLTIAELSFLPNRQVAFENFYNRT  246 (329)
Q Consensus       168 l~~~~~~r~~~i~~~lP~~ld~l~~~~~-aG~~l~~Al~~va~e~~~~~~~l~~e~~~~~~~~~~G~~~~~Al~~~a~r~  246 (329)
T Consensus       288 v~~~~E~kI~~rDe~F~~FIRSLgss~sa~G~~l~~aLe~l~~~---nfG~L~~~I~~LYkRL~~gids~~aW~~F~aeT  364 (527)
T COG1955         288 VARKEERKINRRDEAFPSFIRSLGSSLSAVGNTLVEALEALDRH---NFGILTEDIRRLYKRLAMGIDSNKAWRLFSAET  364 (527)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH---CCCCCCHHHHHHHHHHHCCCCHHHHHHHHCCCC
T ss_conf             75588777753776679999986123422024599999986342---240031779999999871689888998850474


Q ss_pred             CCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99589999999999997199589999999999999999999999
Q gi|254780721|r  247 QMDCVRNATQALIQSDRYGTSIGDSLRVLVSETRSERLMEAEKK  290 (329)
Q Consensus       247 ~~~~~~~~~~~l~~~~~~G~~l~~~L~~~a~~~r~~~~~~~e~~  290 (329)
T Consensus       365 GS~LI~~~S~if~d~i~lGGdp~~~GeiIS~n~~~iv~LR~kR~  408 (527)
T COG1955         365 GSYLISKFSEIFTDAIDLGGDPDVVGEIISENFLEIVLLRKKRE  408 (527)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             66999999999999997189878999998772799999999998