HHsearch alignment for GI: 254780453 and conserved domain: TIGR03470
>TIGR03470 HpnH hopanoid biosynthesis associated radical SAM protein HpnH. The sequences represented by this model are members of the radical SAM superfamily of enzymes (pfam04055). These enzymes utilize an iron-sulfur redox cluster and S-adenosylmethionine to carry out diverse radical mediated reactions. The members of this clade are frequently found in the same locus as squalene-hopene cyclase (SHC, TIGR01507) and other genes associated with the biosynthesis of hopanoid natural products. The linkage between SHC and this radical SAM enzyme is strong; one is nearly always observed in the same genome where the other is found. A hopanoid biosynthesis locus was described in Zymomonas mobilis consisting of the genes HpnA-E and SHC (HpnF). Continuing past SHC are found a phosphorylase enzyme (ZMO0873, i.e. HpnG, TIGR03468) and this radical SAM enzyme (ZMO0874) which we name here HpnH. Granted, in Z. mobilis, HpnH is in a convergent orientation with respect to HpnA-G, but one gene beyond HpnH
Probab=92.31 E-value=0.42 Score=27.55 Aligned_cols=126 Identities=22% Similarity=0.208 Sum_probs=71.7
Q ss_pred CCHHHHHHHHHHHCCCCCEEEECHHHHHCCCHHHHHHHHHHCHHHHHHHHHCCHHHHHHHHHHHHCCCCCEEEEEECC--
Q ss_conf 998999999997388522899868998425589999998515466787764042467898776521567508997246--
Q gi|254780453|r 22 PTVKEAERIVSILSDTVSFYKIGYHLSFSGGLELARDLISDGKSVFLDMKLFDIGSSVTAAIEHIANMGVAMLTVHAY-- 99 (238)
Q Consensus 22 ~~~~e~l~l~~~l~~~i~~iKig~~l~~~~G~~~i~~l~k~~~~If~D~K~~DIpnTv~~~v~~~~~~g~d~iTvH~~-- 99 (238)
T Consensus 59 Ls~ee~~~~~~e~Gap~V~itGGEPLLr~dl~eIv~~a~~~g~~v~l~T----NG~Ll~k~i~~~~~~~~~~~~VsLDG~ 134 (318)
T TIGR03470 59 LSVEECLRAVDECGAPVVSIPGGEPLLHPEIDEIVRGLVARKKFVYLCT----NALLLEKKLDKFEPSPYLTFSVHLDGL 134 (318)
T ss_pred CCHHHHHHHHHHCCCCEEEECCCCCCCCCCHHHHHHHHHHCCCEEEEEC----CHHHHHHHHHHHHHCCCCEEEEECCCC
T ss_conf 8999999999984997899518874556479999999997599799977----552009999998518883699980178
Q ss_pred ----------CHHHHHHHHH---HCCCCCCEEEEEEECCCCHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf ----------0467777653---023553104666414777688765201210488765445421102443111341
Q gi|254780453|r 100 ----------PQTMRSAVSV---VRDTGICLLAVTVLTSMDDFDLRESGYEKDISDMVRMRAVQARDIGMGGIVCSP 163 (238)
Q Consensus 100 ----------~~~l~~~~~~---~~~~~~~il~Vt~LTS~~~~~l~~~g~~~~~~~~v~~~a~~a~~~g~~GvV~s~ 163 (238)
T Consensus 135 ~e~HD~~r~~~G~Fd~av~aIr~ak~~G~~V~iN~Tvf~--~~n----------~~~i~~~~d~~~~lgVdgi~isp 199 (318)
T TIGR03470 135 REHHDASVCREGVFDRAVEAIREAKARGFRVTTNTTLFN--DTD----------PEEVAEFFDYLTDLGVDGMTISP 199 (318)
T ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHCCCCEEEEEEEEC--CCC----------HHHHHHHHHHHHHCCCCEEEECC
T ss_conf 788668871797799999999999986994679989706--899----------99999999999876997389766