HHsearch alignment for GI: 254780485 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=99.40  E-value=1.2e-10  Score=91.03  Aligned_cols=194  Identities=12%  Similarity=0.175  Sum_probs=135.0

Q ss_pred             CHHHHHHHHHHHHHHHCCCCEEE-EEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCEEEE
Q ss_conf             91899999999988862898569-99864530786834232124335477756410006857999999999964983899
Q gi|254780485|r   31 PFNDLLFWSHTVHRKNFEPNHIQ-LSKLLNIKTGGCPENCGYCNQSVHNKSKLKASKLINVDQVLKEAKNAKENGATRYC  109 (328)
Q Consensus        31 ~~~el~~~Aa~~~r~~~~g~~V~-~~~~in~~TN~C~~~C~fCaf~~~~~~~~~~~~~~~~Eei~~~a~~~~~~G~~~~~  109 (328)
T Consensus         4 ~~~~~~~~~~y~~~~~~~g~kr~Plvl~le~-t~rCNL~C~~C~~i~~~~~-~l~-~~Ls~ee~~~~~~---e~Gap~V~   77 (318)
T TIGR03470         4 PLRQNLRVGAYIIKQKLNGRKRFPLVLMLEP-LFRCNLACAGCGKIQYPAE-ILK-QRLSVEECLRAVD---ECGAPVVS   77 (318)
T ss_pred             CHHHHHHHHHHHHHHHHCCCCCCCEEEEEEE-CCCCCCCCCCCCCCCCCCH-HHH-CCCCHHHHHHHHH---HCCCCEEE
T ss_conf             4899999999999877337646675887312-1322677889974136764-654-4389999999999---84997899


Q ss_pred             EECCCCCCCCCCHHHHHHHHHHHCCCCCCEEE-ECCCCCHHHHHHHHCCCCCEEEEECCCCHHHHHCC-CCCCCHHHHHH
Q ss_conf             73036888744289999988762136883241-02569999999874157606975134377773205-88889899999
Q gi|254780485|r  110 MGAAWREPKERDLSIIVDMIKGVKSLGLETCM-TLGMLSFEQAQILSKAGLDYYNHNIDTSERFYPHV-TTTHTFEDRLQ  187 (328)
Q Consensus       110 l~~~~~~~~~~~~~~~~e~i~~i~~~~~~i~~-~~g~~~~~~~~~Lk~aG~~~~~~~let~~~~~~~~-~~~~~~~~~l~  187 (328)
T Consensus        78 i-tGGEPLLr~dl~eI---v~~a~~~g~~v~l~TNG~Ll~k~i~~~~~~~~~~~~VsLDG~~e~HD~~r~~~G~Fd~av~  153 (318)
T TIGR03470        78 I-PGGEPLLHPEIDEI---VRGLVARKKFVYLCTNALLLEKKLDKFEPSPYLTFSVHLDGLREHHDASVCREGVFDRAVE  153 (318)
T ss_pred             E-CCCCCCCCCCHHHH---HHHHHHCCCEEEEECCHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHCCCCHHHHHHH
T ss_conf             5-18874556479999---9999975997999775520099999985188836999801787886688717977999999


Q ss_pred             HHHHHHHCCCCCCCEEEECCCCCHHHHHHHHHHHHHCCCCCCEEECCCE
Q ss_conf             9999998798557707866898999999999999740888860205411
Q gi|254780485|r  188 TLENVRKSGIKVCCGGILGLGEMIDDRIDMLLTLANLSTPPESIPINLL  236 (328)
Q Consensus       188 ~~~~a~~~G~~~~sg~l~G~gEt~eeri~~l~~lr~l~~~~~~v~~~~~  236 (328)
T Consensus       154 aIr~ak~~G~~V~iN~Tvf~~~n~~~i~~~~d~~~~lgV--dgi~isp~  200 (318)
T TIGR03470       154 AIREAKARGFRVTTNTTLFNDTDPEEVAEFFDYLTDLGV--DGMTISPG  200 (318)
T ss_pred             HHHHHHHCCCCEEEEEEEECCCCHHHHHHHHHHHHHCCC--CEEEECCC
T ss_conf             999999869946799897068999999999999987699--73897665