HHsearch alignment for GI: 254781000 and conserved domain: PRK11088
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional.
Probab=97.70 E-value=0.00018 Score=48.38 Aligned_cols=119 Identities=15% Similarity=0.246 Sum_probs=76.1
Q ss_pred HHHHCCCHHHHHHHHHHEEECCCCCCCEEEEECCCCCHHHHHHHHC-----CCEEEEECCCHHHHHHHHHHHHHCCCCCE
Q ss_conf 1331235778775544201114778833886024642358888506-----85699844758899999997886089964
Q gi|254781000|r 185 NSFTQPNAGINVHMLEWVLAATKGIQGDLLELYCGNGNFSLVLARH-----FDRVLAVEIAKPSVEAARYNIAANHVNNV 259 (371)
Q Consensus 185 ~sFfQ~N~~~~~~l~~~v~~~~~~~~~~vlDLycG~G~fsl~La~~-----~~~V~gvE~~~~ai~~A~~Na~~N~i~n~ 259 (371)
T Consensus 64 ~G~y~---pl~~~i~~~~~~~~~~~~~~ilD~GCGEGyYl~~l~~~l~~~~~~~~~G~DiSK~ai~~Aak---~~--~~~ 135 (272)
T PRK11088 64 AGHYQ---PLRDAVANLLAERLDEKATAILDIGCGEGYYTHALADALPEVTTCQLFGLDISKVAIKYAAK---RY--PQV 135 (272)
T ss_pred CCCCH---HHHHHHHHHHHHHCCCCCCEEEEECCCCCHHHHHHHHHHHCCCCCCEEEEECCHHHHHHHHC---CC--CCC
T ss_conf 68847---99999999999756777864888158777899999997411578737998117999999962---68--885
Q ss_pred EEEECCHHHHHHHHHHCCCCCCCCCCHHCCCCCCEEE-ECCCCCCHHHHHHHHHHCCCCEEEEECCHHHHH
Q ss_conf 9997689999898862332222321010147877999-869702634899999853994899929989998
Q gi|254781000|r 260 KIVRMSSKEFTQAMRREREFNRLKDIDIHSYRFKTIF-VDPPRSGLDDATVGMVQAYPHILYISCNPDSLC 329 (371)
Q Consensus 260 ~f~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~d~vi-lDPPR~G~~~~~~~~~~~~~~ivYVSCnp~Tla 329 (371)
T Consensus 136 ~~~Va~~~~----------------lP~~d~s~D~vl~vFsP~~~--~Ef~RvLkp~G~li~V~P~~~HL~ 188 (272)
T PRK11088 136 TFCVASSHR----------------LPFADQSLDAIIRIYAPCKA--EELARVVKPGGIVITVTPGPRHLF 188 (272)
T ss_pred EEEEEECCC----------------CCCCCCCCEEEEEEECCCCH--HHHHHEECCCCEEEEEECCHHHHH
T ss_conf 499961001----------------88876654089998437885--886124637978999978888999