HHsearch alignment for GI: 254780755 and conserved domain: TIGR03465
>TIGR03465 HpnD squalene synthase HpnD. 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 HpnC 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=96.76 E-value=0.022 Score=34.43 Aligned_cols=134 Identities=19% Similarity=0.157 Sum_probs=80.4
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 85 ~~~~~li~g~~~Dl~~~~--~~t~~~L~~Y~~~vA~~vg~m~~~i---l-g~~~---~~~~~~A~~lG~A~QltNilRDv 155 (266)
T TIGR03465 85 EDFLEVIDGMEMDLEQTR--YPDFAELDLYCDRVAGAVGRLSARI---F-GATD---ARTLEYAHHLGRALQLTNILRDV 155 (266)
T ss_pred HHHHHHHHHHHCCCCCCC--CCCHHHHHHHHHHHHHHHHHHHHHH---C-CCCC---HHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 999999999985578999--9999999999998636999999988---0-8997---57899999999999999999971
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 156 -----------~eD~~~gR~YLP~d~l~~~gv~-~-~---~l~-~~~~~~-~~~~---~------~~~~~~~A~~~~~~a 208 (266)
T TIGR03465 156 -----------GEDARRGRIYLPAEELQRFGVP-A-A---DIL-EGRYSP-ALAA---L------CRFQAERARAHYAEA 208 (266)
T ss_pred -----------HHHHHCCCEECCHHHHHHCCCC-H-H---HHH-CCCCCH-HHHH---H------HHHHHHHHHHHHHHH
T ss_conf -----------8899789975779999886999-8-8---873-478887-8999---9------999999999999999
Q ss_pred HHHHHCCCCC
Q ss_conf 9984208999
Q gi|254780755|r 295 KDSLRCLPDS 304 (322)
Q Consensus 295 ~~~L~~lp~~ 304 (322)
T Consensus 209 ~~~~~~lp~~ 218 (266)
T TIGR03465 209 DALLPACDRR 218 (266)
T ss_pred HHHHHHCCHH
T ss_conf 9758648998