HHsearch alignment for GI: 254780775 and conserved domain: cd00475
>cd00475 CIS_IPPS Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl diphosphates. A few can also catalyze the condensation of IPP to trans-geranyl diphosphate to form the short-chain cis,trans- FPP. In prokaryotes, the cis-IPPS, undecaprenyl diphosphate synthase (UPP synthase) catalyzes the formation of the carrier lipid UPP in bacterial cell wall peptidooglycan biosynthesis. Similarly, in eukaryotes, the cis-IPPS, dehydrodolichyl diphosphate (dedol-PP) synthase catalyzes the formation of the polyisoprenoid glycosyl carrier lipid dolichyl monophosphate. cis-IPPS are mechanistically and structurally distinct from trans-IPPS, lacking the DDXXD motifs, yet requiring Mg2+ for activity.
Probab=100.00 E-value=0 Score=613.95 Aligned_cols=221 Identities=43% Similarity=0.787 Sum_probs=218.8
Q ss_pred CCEEEEECCCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCHHHHHHHHHHHHHHHHHCC
Q ss_conf 82699984885189997599877989999999999999999769868999720233653230124888898886310000
Q gi|254780775|r 11 PDHIGIIMDGNGRWAAARGLPRCAGHRKGIEVFNEIVAAAAEVGIKNLTIFAFSINNWRRPVSEISELVKLIKSFLKKGF 90 (243)
Q Consensus 11 P~HIaiImDGNrRwAk~~gl~~~~Gh~~G~~~l~~ii~~~~~~gI~~lTvyafS~eN~~R~~~Ev~~L~~l~~~~l~~~~ 90 (243)
T Consensus 1 P~HiaiImDGNrRwA~~~g~~~~~Gh~~G~~~~~~i~~~~~~~gI~~lTvyafStEN~~R~~~Ev~~Lm~L~~~~l~~~~ 80 (221)
T cd00475 1 PKHVAFIMDGNRRWAKQRGMDRIEGHKAGAEKLRDILRWCLELGVKEVTLYAFSTENWKRPKEEVDFLMELFRDVLRRIL 80 (221)
T ss_pred CCEEEEECCCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCHHHHCCCHHHHHHHHHHHHHHHHHHH
T ss_conf 98799963486999987799878999999999999999999859998999981177767769999999999999999989
Q ss_pred CCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHCCCCCCEEEEEECCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHH
Q ss_conf 10000283263138744510000235899987420254311589724881578998778764367648968778115531
Q gi|254780775|r 91 YSLKKNNIKVRVIGNRLSLDDDILCVLKEAEDQTRLNTGLNLFIAFNYSSRDEISRAIKNIFQDIESGSVCSHDVDSSLI 170 (243)
Q Consensus 91 ~~~~~~~iki~~iGd~~~lp~~i~~~i~~~e~~T~~n~~~~Lnia~~Yggr~EI~~A~k~l~~~~~~~~~~~~~I~~~~i 170 (243)
T Consensus 81 ~~~~~~~iri~~iG~~~~Lp~~l~~~i~~~e~~T~~n~~~~Lnia~~Yggr~EIv~A~k~i~~~~~~~~~~~~~i~~~~~ 160 (221)
T cd00475 81 KELEKLGVRIRIIGDLSLLPESLQKEIKKAEEATKNNTGFTLNVAFNYGGRQEIIHAVREIAEKVKAGKLTPEDIDESTL 160 (221)
T ss_pred HHHHHCCEEEEEEECHHHCCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf 99998897999994720089899999999997614898105999973698899999999999999808999678678887
Q ss_pred CCCCCCCCCCCCCEEEECCCCEECCCCCCCHHCCCEEEECCCCCCCCCHHHHHHHHHHHHH
Q ss_conf 0113367877652699457852133656401135538863687888898999999999863
Q gi|254780775|r 171 AKYLDTSDVPDPDLIIRTGGEKRLSDFLLWQVAYSEFVFIPEYWPDFSRELFFHALNQYNL 231 (243)
Q Consensus 171 ~~~L~~~~~p~pDLlIRTsGe~RLSnFllwq~~ysEl~F~~~lWPdf~~~dl~~~i~~y~~ 231 (243)
T Consensus 161 ~~~L~~~~~p~pDLlIRTsGe~RLSnFLlwq~ayaEl~F~~~lWPdF~~~dl~~ai~~y~k 221 (221)
T cd00475 161 NKHLYTHDSPDPDLLIRTSGEQRLSNFLLWQSAYSELYFSDVLWPDFTFWDFLRALLDYQR 221 (221)
T ss_pred HHCCCCCCCCCCCEEEECCCCCCCCCHHHHHHHCEEEEECCCCCCCCCHHHHHHHHHHHCC
T ss_conf 7407789999767788548961112405654414368977898877999999999999719