HHsearch alignment for GI: 254781120 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=98.22 E-value=0.00016 Score=54.45 Aligned_cols=191 Identities=15% Similarity=0.216 Sum_probs=128.4
Q ss_pred EEEEECCCCHHCCCCCCCCC-C-H-HHCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCEEEEECCCCHHH
Q ss_conf 89884065100486132244-1-1-1027898999999999999722203444434344454586110144101454454
Q gi|254781120|r 116 LCVSSQVGCSLTCSFCYTGT-Q-K-LVRNLTAEEILLQVLLARSLLGDFPGCEDIEGMVIPSVGRKISNIVMMGMGEPLC 192 (384)
Q Consensus 116 ~CvSSQvGC~m~C~FCaTg~-~-G-~~RNLt~~EIv~Qv~~~~~~l~~~~~~~~~~~~~~~~~~~~i~NiVfMGmGEPl~ 192 (384)
T Consensus 198 ~~i~TSRGCP~~C~FC~~p~~~~Gr~~R~RSpe~VvdEIe~l~~~y~------------------gv~~~~f~-DD~Ft~ 258 (472)
T TIGR03471 198 ISLYTGRGCPSKCTFCLWPQTVGGHRYRTRSAESVIEEVKYALENFP------------------EVREFFFD-DDTFTD 258 (472)
T ss_pred EEEECCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCC------------------CCCEEEEE-CCCCCC
T ss_conf 47641799887796878821026886621599999999999998668------------------97589994-776678
Q ss_pred HHHHHHHHHHCCCCCCCCCCCCC-EEEEEECCCCHHHHHHHCCCC-CCEEEEEECCCCHHHHHHCCCCCCCCHHHHHHHH
Q ss_conf 28999999603768457787753-688851387414788601256-5179984045511344412331257899999999
Q gi|254781120|r 193 NFDNVKKSLSIASDSMGLSFSKR-RITLSTSGFVPNIARVGEEIG-VMLAISLHAVSNDLRNILVPINRKYPLEMLIDAC 270 (384)
Q Consensus 193 N~d~v~~ai~~l~~~~g~~~~~r-~ITvST~Gi~p~I~~la~~~~-~~LAiSLha~~~~~R~~lmPi~~~~~l~~l~~a~ 270 (384)
T Consensus 259 ~~~r~~eic~~i~-~l~i~W~~~~Rv~-----~d~E~l~~mk~AGc~~v~~GiESgsq~iL~~i---~K~~t~e~~~~av 329 (472)
T TIGR03471 259 DKPRAEEIARKLG-PLGVTWSCNARAN-----VDYETLKVMKENGLRLLLVGYESGDQQILKNI---KKGLTVEIARRFT 329 (472)
T ss_pred CHHHHHHHHHHHH-HCCCEEEEEEECC-----CCHHHHHHHHHHCCEEEEEECCCCCHHHHHHH---CCCCCHHHHHHHH
T ss_conf 9999999999998-7698278763034-----89999999998398489980375899999985---3899899999999
Q ss_pred HHHHHHCCCCEEEEEEEEECCCCCCHHHHHHHHHHHCCCC-CEEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHCCCEE
Q ss_conf 9998625894599999872699988899999999832545-31667512778879886889899999999999879878
Q gi|254781120|r 271 RHYPGLSNARRITFEYVMLKGINDSPRDALNLIKILKGIP-AKINLIPFNPWPGCEYLCSDQKDIVTFSECIKRSGYSS 348 (384)
Q Consensus 271 ~~y~~~~~~rrit~EYvli~gvNDs~e~a~~L~~ll~~~~-~~vNLIp~N~~~~~~~~~~~~~~i~~F~~~L~~~Gi~~ 348 (384)
T Consensus 330 ~~~-k~~-G-I~v~~~FIiG~PgET~Eti~~Ti~fa~~l~~d~~~~si~tPyPGT~-----------ly~~~~e~g~i~ 394 (472)
T TIGR03471 330 RDC-HKL-G-IKVHGTFILGLPGETRETIRKTIDFAKELNPHTIQVSLAAPYPGTE-----------LYDQAKQNGWIT 394 (472)
T ss_pred HHH-HHC-C-CEEEEEEEECCCCCCHHHHHHHHHHHHHCCCCEEEEEEECCCCCCH-----------HHHHHHHCCCCC
T ss_conf 988-757-9-8799999877999988999999999997598908998725889969-----------999999839855