HHsearch alignment for GI: 254780202 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=99.18 E-value=6.1e-11 Score=95.02 Aligned_cols=77 Identities=23% Similarity=0.318 Sum_probs=61.6
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCC-CCHHHHHH
Q ss_conf 68988875553333236888877575232588866078999999999875216678738998077200003-51789999
Q gi|254780202|r 29 FSGCNLWSGREQDRLSAQCRFCDTDFVGIQGTKGGRYNVDQLADLIEEQWITGEKEGRYCVLTGGEPLLQV-DVPLIQAL 107 (211)
Q Consensus 29 l~GCnL~c~~~~~~~~~~C~~CDT~y~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~VviTGGEPllq~-l~~L~~~l 107 (211)
T Consensus 35 t~rCNL-----------~C~~C~~-i~~~~~~l~~~Ls~ee~~~~~~e~------Gap~V~itGGEPLLr~dl~eIv~~a 96 (318)
T TIGR03470 35 LFRCNL-----------ACAGCGK-IQYPAEILKQRLSVEECLRAVDEC------GAPVVSIPGGEPLLHPEIDEIVRGL 96 (318)
T ss_pred CCCCCC-----------CCCCCCC-CCCCCHHHHCCCCHHHHHHHHHHC------CCCEEEECCCCCCCCCCHHHHHHHH
T ss_conf 132267-----------7889974-136764654438999999999984------9978995188745564799999999
Q ss_pred HHCCCEEEEECCCCCC
Q ss_conf 8689879997278886
Q gi|254780202|r 108 NKRGFEIAVETNGTIE 123 (211)
Q Consensus 108 ~~~g~~v~IETnGt~~ 123 (211)
T Consensus 97 ~~~g~~v~l~TNG~Ll 112 (318)
T TIGR03470 97 VARKKFVYLCTNALLL 112 (318)
T ss_pred HHCCCEEEEECCHHHH
T ss_conf 9759979997755200