HHsearch alignment for GI: 254780755 and conserved domain: TIGR03464
>TIGR03464 HpnC squalene synthase HpnC. This family of genes are members of a superfamily (pfam00494) of phytoene and squalene synthases which catalyze the head-t0-head condensation of polyisoprene pyrophosphates. The genes of this family are often found in the same genetic locus with squalene-hopene cyclase genes, and are never associated with genes for the metabolism of phytoene. In the organisms Zymomonas mobilis and Bradyrhizobium japonicum these genes have been characterized as squalene synthases (farnesyl-pyrophosphate ligases). Often, these genes appear in tandem with the HpnD gene which appears to have resulted from an ancient gene duplication event. Presumably these proteins form a heteromeric complex, but this has not yet been experimentally demonstrated.
Probab=97.22 E-value=0.011 Score=36.22 Aligned_cols=133 Identities=16% Similarity=0.172 Sum_probs=78.9
Q ss_pred HHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHCC
Q ss_conf 45677777754565542132210357898998643355554432100011222210157999997311168988764112
Q gi|254780755|r 135 LVACTLAEGELRQLSLSKNLDVTEEDYLHVIKSKTAVLFSAALEVSSLIAGVQNSVRQALKSYGMNLGIAFQLVDDVLDY 214 (322)
Q Consensus 135 ~~~~~l~~Gq~~d~~~~~~~~~s~~~y~~ii~~KTa~Lf~~~~~~ga~lag~~~~~~~~l~~fG~~lG~afQI~DD~ld~ 214 (322)
T Consensus 86 ~~~~~li~g~~~Dl~~~~--~~t~~dL~~Yc~~vAg~VG~~~~~---i~-g~~~---~~~~~~a~~lG~AlQltNilRDi 156 (266)
T TIGR03464 86 EPFLDLLDAFRQDVVVTR--YATWAELLDYCRRSANPVGRLVLD---LY-GASD---PENVALSDAICTALQLINFWQDV 156 (266)
T ss_pred HHHHHHHHHHHHCCCCCC--CCCHHHHHHHHHHHHHHHHHHHHH---HH-CCCC---HHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 999999999884146799--999999999999963899999999---82-7898---88999999997999999999985
Q ss_pred CCCCCCCCCHHHHHHHHCCCCCCCCHHHHCCCCCCCHHHHHHCCCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHH
Q ss_conf 36700038401234542136532100110143110001343203689998999999999997496999999999999999
Q gi|254780755|r 215 RGEVNEMGKNIGEDFRNGKPTLPVILAFQRGTKREKNFWKSTINDGKISVENLKKAFIIMRENRALVDTEYRAYSYGQKA 294 (322)
Q Consensus 215 ~g~~~~~GK~~g~Dl~egk~Tlpii~al~~~~~~~~~~l~~~~~~~~~~~~~~~~i~~ll~~~gai~~~~~~~~~~~~~A 294 (322)
T Consensus 157 -----------~eD~~~gRiYLP~e~L~~~gv~~--~---~l~-~~~~~-~~~~~~---------~~~~~~~A~~~y~~a 209 (266)
T TIGR03464 157 -----------GKDLRKGRVYLPRDDLARFGVSE--E---DLA-AGRAT-PALREL---------MAFEVSRTRALLDRG 209 (266)
T ss_pred -----------HHHHHCCCEECCHHHHHHCCCCH--H---HHH-CCCCC-HHHHHH---------HHHHHHHHHHHHHHH
T ss_conf -----------87998798568699998859999--9---983-67899-899999---------999999999999989
Q ss_pred HHHHHCCCC
Q ss_conf 998420899
Q gi|254780755|r 295 KDSLRCLPD 303 (322)
Q Consensus 295 ~~~L~~lp~ 303 (322)
T Consensus 210 ~~~~~~lp~ 218 (266)
T TIGR03464 210 APLAARIPG 218 (266)
T ss_pred HHHHHHCCH
T ss_conf 884875998