HHsearch alignment for GI: 254780468 and conserved domain: TIGR03471
>TIGR03471 HpnJ hopanoid biosynthesis associated radical SAM protein HpnJ. One of the well-described hopanoid intermediates is bacteriohopanetetrol. In the conversion from hopene several reactions must occur in the side chain for which a radical mechanism might be reasonable. These include the four (presumably anaerobic) hydroxylations and a methyl shift.
Probab=91.04 E-value=1 Score=23.03 Aligned_cols=123 Identities=18% Similarity=0.122 Sum_probs=69.2
Q ss_pred CCHHHHHHHHHHHHCCCCHHHEEEEEEHHHHHCCHHHHHHHHHHHHHCCCEEEEECCCCCHHHHHHHHHCCCCEEEEEHH
Q ss_conf 91489999999988199954699997133775099989999999998898999918877645488897279989997168
Q gi|254780468|r 807 DNELCEGMQALISKTLYSPSRIKLSFSESVVMGNPERSRLLLGRLRKIGISLTLDDFGTKCSLLSYLGYIPFDTVKFNGS 886 (963)
Q Consensus 807 ~~~f~~~l~~~l~~~~~~~~~l~lEitE~~~~~~~~~~~~~~~~l~~~G~~ialDdFG~g~ssl~~L~~l~~d~iKiD~s 886 (963)
T Consensus 259 ~~~r~~eic~~i~~l~i-----~W~~~~Rv~-~d----~E~l~~mk~AGc~~v~--~GiESgsq~iL~~i~--------- 317 (472)
T TIGR03471 259 DKPRAEEIARKLGPLGV-----TWSCNARAN-VD----YETLKVMKENGLRLLL--VGYESGDQQILKNIK--------- 317 (472)
T ss_pred CHHHHHHHHHHHHHCCC-----EEEEEEECC-CC----HHHHHHHHHHCCEEEE--EECCCCCHHHHHHHC---------
T ss_conf 99999999999987698-----278763034-89----9999999983984899--803758999999853---------
Q ss_pred HHCCCCHHHHHHHHHHHHHHHHCCCEEEEEEC-----CCHH----HHHHHHHCCCCEEECCCCCCCCCHHHHHHHHHHH
Q ss_conf 85399945799999999999977980999703-----9989----9998998099899405206899989999999851
Q gi|254780468|r 887 LMTGSTEKRIAILRSIIPMAKNIETTIIAKDI-----YGEI----DIKELTRMGCDYIQDSHVASPLGFNSILKLLKER 956 (963)
Q Consensus 887 fv~~~~~~~~~~v~sii~~a~~lgi~viAegV-----E~~~----~~~~l~~~G~d~~QG~~~~~P~~~~~~~~~l~~~ 956 (963)
T Consensus 318 --K~~t~---e~~~~av~~~k~~GI~v~~~FIiG~PgET~Eti~~Ti~fa~~l~~d~~~~s-i~tPyPGT~ly~~~~e~ 390 (472)
T TIGR03471 318 --KGLTV---EIARRFTRDCHKLGIKVHGTFILGLPGETRETIRKTIDFAKELNPHTIQVS-LAAPYPGTELYDQAKQN 390 (472)
T ss_pred --CCCCH---HHHHHHHHHHHHCCCEEEEEEEECCCCCCHHHHHHHHHHHHHCCCCEEEEE-EECCCCCCHHHHHHHHC
T ss_conf --89989---999999998875798799999877999988999999999997598908998-72588996999999983