RPSBLAST alignment for GI: 254780168 and conserved domain: TIGR01988

>gnl|CDD|162642 TIGR01988, Ubi-OHases, Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family. This model represents a family of FAD-dependent hydroxylases (monooxygenases) which are all believed to act in the aerobic ubiquinone biosynthesis pathway. A separate set of hydroxylases, as yet undiscovered, are believed to be active under anaerobic conditions. In E. coli three enzyme activities have been described, UbiB (which acts first at position 6, see TIGR01982), UbiH (which acts at position 4, ) and UbiF (which acts at position 5). UbiH and UbiF are similar to one another and form the basis of this subfamily. Interestingly, E. coli contains another hydroxylase gene, called visC, that is highly similar to UbiF, adjacent to UbiH and, when mutated, results in a phenotype similar to that of UbiH (which has also been named visB). Several other species appear to have three homologs in this family, although they assort themselves differently on phylogenetic trees (e.g. Xylella and Mesorhizobium) making it difficult to ascribe a specific activity to each one. Eukaryotes appear to have only a single homolog in this subfamily (COQ6) which complements UbiH, but also possess a non-orthologous gene, COQ7 which complements UbiF. Length = 385
 Score =  106 bits (268), Expect = 8e-24
 Identities = 105/401 (26%), Positives = 159/401 (39%), Gaps = 58/401 (14%)

Query: 2   IIGAGISGLTLAASLGHRGIQSCVLEKKD--QLSDSGFGIQ---ISPNASRILKRIGILD 56
           I+G G+ GL LA +L   G++  ++E       +  GF  +   +S  + R+L+++G+ D
Sbjct: 4   IVGGGMVGLALALALARSGLKIALIEATPAEAAATPGFDNRVSALSAASIRLLEKLGVWD 63

Query: 57  QLEDIWIEP-ED-FVFRSGSTLKELSRFSCKNYSRNNWGGIYGVVKRHTLQKILLNHIQT 114
           ++E    +P  D  V   GS       F          G  Y VV+   LQ+ L   +Q 
Sbjct: 64  KIEPDRAQPIRDIHVSDGGSFGA--LHFDADEIGLEALG--Y-VVENRVLQQALWERLQE 118

Query: 115 QPLARLH----LSTHITHPDCTQISKINNQ--KPDLLVGADGLNSNIRH--YIDTQ--PI 164
            P   L     +     H D  +++  + Q  +  LLVGADG NS +R    I T     
Sbjct: 119 YPNVTLLCPARVVELPRHSDHVELTLDDGQQLRARLLVGADGANSKVRQLAGIPTTGWDY 178

Query: 165 TFSGDV-VLRCLIPQNNAPEFIDFQSVNIFFGPDSHLVTYPLREDNTINMVFVSSKH--- 220
             S  V  ++   P         ++     F P   L   PL  DN  ++V+        
Sbjct: 179 GQSAVVANVKHERPHQG----TAWE----RFTPTGPLALLPL-PDNRSSLVWTLPPEEAE 229

Query: 221 TLKDISFLKRSEIHKEWFVKHLTNWHQEIIQLILQINDTHLYPLFECECKHWHN--KKNA 278
            L  +S         E F+  L       +  I  + + H +PL      H         
Sbjct: 230 RLLALSD--------EEFLAELQRAFGSRLGAITLVGERHAFPL---SLTHAKRYVAPRL 278

Query: 279 VLIGDAAHTLLPFAAQGANMAIEDAYALSYLLGK-----KTI--PAAISAYQKVRAV-RV 330
            LIGDAAHT+ P A QG N+ + D  AL+ +L       + I  P  +  Y++ R     
Sbjct: 279 ALIGDAAHTIHPLAGQGLNLGLRDVAALAEVLEDARRRGEDIGSPRVLQRYERRRRFDNA 338

Query: 331 KRIRYRTKLNQLLFHMH-RPASLFRNAGLRLGIHKPLHKSL 370
             +     LN+ LF     P  L RN GLRL    P  K+ 
Sbjct: 339 AMLGATDGLNR-LFSNDFPPLRLLRNLGLRLLNLLPPLKNF 378