HHsearch alignment for GI: 254780398 and conserved domain: pfam00398

>pfam00398 RrnaAD Ribosomal RNA adenine dimethylase.
Probab=100.00  E-value=0  Score=538.26  Aligned_cols=253  Identities=29%  Similarity=0.422  Sum_probs=232.3

Q ss_pred             CCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCEEEEECCCCCHHHHHHHHCCCCEEEEECCCCCCHHHHHHHHHHHHCCC
Q ss_conf             89843365841123989999999971989998799975898823467750235259984255430368878753220012
Q gi|254780398|r   18 KIIPKKYMGQNFLLDLNILKKIAESSGSLDGITVIEIGAGPGNLTQMLLTLGARKVIVIEKDQQFFPILKDISSQHPNRL   97 (284)
Q Consensus        18 ~~~p~k~lGQnFL~d~~i~~~iv~~~~~~~~~~VlEIGpG~G~LT~~Ll~~~~~~v~aiEiD~~~~~~l~~~~~~~~~~~   97 (284)
T Consensus         1 ~~r~kK~lGQnFL~d~~i~~kIv~~~~~~~~d~VlEIGPG~G~LT~~L~~~-~~~v~aiE~D~~l~~~L~~~~~~~~-~~   78 (258)
T pfam00398         1 ANKGRRSYGQNFLTNKKVINRIVDKANLQESDTVLEIGPGKGALTEELAKR-AKQVVAIEIDPRLAKRLQKKLALHP-NV   78 (258)
T ss_pred             CCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCEEEEECCCHHHHHHHHHHC-CCCEEEEECCHHHHHHHHHHHCCCC-CE
T ss_conf             998856677531389999999999708999997999799623999999961-6947999544779999998644289-77


Q ss_pred             CCCHHHHCCCCHHHHCCCCCCEEEEECCCHHHHHHHHHHHHHHHCCCCCCCHHHHEEEHHHHHHHHHCCCHHHHHHHHHH
Q ss_conf             20000000143155213322201120232246788999998520100000011020334478875301231233234543
Q gi|254780398|r   98 EIIQDDALKVDFEKFFNISSPIRIIANLPYNIGTRLLFNWISADTWPPFWESLTLLFQKEVGERITAQKNSPHYGRLSVL  177 (284)
Q Consensus        98 ~ii~~Dal~~d~~~~~~~~~~~~vvgNLPYnIss~Il~~ll~~~~~~~~~~~~vlmvQkEvA~Rl~a~pg~k~Yg~LSv~  177 (284)
T Consensus        79 ~ii~~D~l~~d~~~----~~~~~vvgNLPY~Iss~il~~ll~~~~--~~~~~~vlmvQkEvA~Rl~a~pg~k~y~~LSv~  152 (258)
T pfam00398        79 EVVHQDFLKFSFPK----HEPFLVVGNIPYNITTPIVKKLLFEPR--FGRVKMLLVVQKEFARRLLARPGSKIYSRLTVL  152 (258)
T ss_pred             EEEECCHHCCCCCC----CCCEEEEECCCCCCCHHHHHHHHHCCC--CCCCEEEEEEEHHHHHHHHCCCCCCCCCHHHHH
T ss_conf             99966301057545----786168944886341789999997047--672048999889999998558998651368999


Q ss_pred             HCCCCCEEEECCCCCCEECCCCCCCEEEEEECCCCCCC--CCCHHHHHHHHHHHHCCCCHHHHHHHHHCCCH---HHHHH
Q ss_conf             20133201200011000010578757887301258855--34767899999999727313899987631817---89997
Q gi|254780398|r  178 TGWRTKATMMFDISPHVFFPSPKVTSTVIHFIPHLNPI--PCCLESLKKITQEAFGKRRKTLRQSLKRLGGE---NLLHQ  252 (284)
Q Consensus       178 ~q~~~~v~~~~~V~~~~F~P~PkVdS~vi~l~pk~~~~--~~~~~~~~~~~~~~F~~RRK~l~~~L~~~~~~---~~l~~  252 (284)
T Consensus       153 ~q~~~~~~~l~~V~~~~F~P~PkVdSavv~l~~~~~~~~~~~~~~~~~~~v~~~F~~RRK~L~n~L~~~~~~~~~~~l~~  232 (258)
T pfam00398       153 TEPFTDIKLVAKVPRSSFRPPPKVDSALVRLERRDHPLLPVKDLKKYDYLVRKLFNGKGRSLFTSLRRLFPGGQVQALSK  232 (258)
T ss_pred             HHHHHEEEEEEEECHHHEECCCCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCHHHHHHHHH
T ss_conf             99974051522855141465998747999999898887872349999999999981163789999987388079999998


Q ss_pred             CCCCCCCCHHCCCHHHHHHHHHHHHH
Q ss_conf             87774657120899999999999863
Q gi|254780398|r  253 AGIETNLRAENLSIEDFCRITNILTD  278 (284)
Q Consensus       253 ~~i~~~~R~e~Ls~~~~~~L~~~l~~  278 (284)
T Consensus       233 ~gi~~~~R~e~Ls~e~~~~L~~~l~k  258 (258)
T pfam00398       233 TRINDNALVGKLSPEQWLTIFKELAK  258 (258)
T ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHCC
T ss_conf             77698888615999999999999709