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