HHsearch alignment for GI: 254780842 and conserved domain: TIGR01988

>TIGR01988 Ubi-OHases Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; InterPro: IPR010971 This entry 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 Escherichia coli, three enzyme activities have been described: UbiB (which acts first at position 6, see IPR010232 from INTERPRO), 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 homologue in this subfamily (COQ6, ) which complements UbiH, but also possess a non-orthologous gene, COQ7 which complements UbiF.; GO: 0016709 oxidoreductase activity acting on paired donors with incorporation or reduction of molecular oxygen NADH or NADPH as one donor and incorporation of one atom of oxygen, 0050660 FAD binding, 0006744 ubiquinone biosynthetic process.
Probab=100.00  E-value=0  Score=629.84  Aligned_cols=375  Identities=32%  Similarity=0.510  Sum_probs=351.5

Q ss_pred             EEEEECCCHHHHHHHHHHHHCC-----CEEEEEECCCC------C----CCCCEEEECHHHHHHHHHCCCHHHHHH-CCC
Q ss_conf             2999979089999999999789-----85999828855------5----578368887889999998899478886-047
Q gi|254780842|r    5 DVIIIGSGLAGSVAAIGAAKKG-----FLTALVSPRSF------L----QDLRTTMLMGEGIDFLKEINVWDFLQD-IAE   68 (384)
Q Consensus         5 DV~IvGaG~aGl~lA~~L~~~g-----~~v~iiE~~~~------~----~~~r~~~l~~~s~~~L~~lGl~~~l~~-~~~   68 (384)
T Consensus         1 Di~IvGgG~VG~~lA~aL~~~~~~~~~L~~~l~e~~~~~~~~~~~~~~~~D~R~~Al~~~S~~~L~~lG~W~~~~~~~~~   80 (445)
T TIGR01988         1 DIVIVGGGMVGLALALALASSGSRLKGLKVALIEAQPAEAPSFFAATPGFDNRVSALSAASIRLLEKLGVWDKIEPDRAQ   80 (445)
T ss_pred             CEEEECCCHHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCEEEHHHHHHHHHHHCCCCHHHHHHHCC
T ss_conf             96888473889999999841863124731799605211442211258765522010107999999867964452012126


Q ss_pred             CCCCEEEEECCCCCCCCC---CCCCCCHHCC--CCCCCCHHHHCCHHHHHHHHHHHCCC---CCCCCEEEEEECCC----
Q ss_conf             123418994257655454---4434502228--75312011100000000123664798---32342056530268----
Q gi|254780842|r   69 PVSSFRLVDITDRLITAP---DAIFHSSEIG--LDAFGYNIPNHVLMESFAEKISQDPL---IHCFDALANEIQIG----  136 (384)
Q Consensus        69 ~~~~~~~~~~~~~~~~~~---~~~~~~~~~~--~~~~g~~i~r~~L~~~L~~~~~~~~~---~~~~~~~v~~i~~~----  136 (384)
T Consensus        81 p~~~~~V~D~~~~g-~~~~P~~~~F~~~~~~~~~~~LG~~ven~~~~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (445)
T TIGR01988        81 PIRDIHVSDGGSFG-RAPHPAALHFDADEVGGPAEALGYVVENRVLQQALWEALQELPNEKVTLLCPARVEELPRHSSKN  159 (445)
T ss_pred             CCCEEEEEECCCCC-CCCCCEEEEECHHHCCCCCCCCCEEECHHHHHHHHHHHHHHCCCCEEEEECCCEEEEEECCCCCC
T ss_conf             32048887267888-88886368744344178801123671188999999999996689647751672147740367756


Q ss_pred             -CEEEEEECCCCCE---EEEEEEEEECCCCCCCCCCCCCCCCCC-CCCEEEEEEEECCCCCCCEEEEEECCC-CCCCCCC
Q ss_conf             -7178983023201---211123530375432000378733222-243047876411478861178872278-7542100
Q gi|254780842|r  137 -EEEVTILLSTGQQ---IVGQFLIGSDGRNSSVRRQMGYGENKW-SYPQKALVLNFQHSMPHNGRCVEFHKS-LGTITQI  210 (384)
Q Consensus       137 -~~~v~v~~~dg~~---i~adlvVgADG~~S~vR~~l~~~~~~~-~y~~~~l~~~~~~~~~~~~~a~~~f~~-~G~~a~l  210 (384)
T Consensus       160 ~~~~v~~~L~~G~~~~~l~a~LlvgADG~~S~vR~~~gI~~~~~R~Y~Q~a~Va~v~~~~~h~~~A~erF~~~~GP~AlL  239 (445)
T TIGR01988       160 DSDEVELTLSDGRQKLLLRARLLVGADGANSKVRQLAGIPTTGWRDYGQSAVVANVKHERPHQGTAWERFLPDTGPLALL  239 (445)
T ss_pred             CCCCEEEEECCCCEEEEEEECEEEEECCCCHHHHHHHCCCCCEEECCCCEEEEEEEEECCCCCCEEEEEEECCCCCEEEC
T ss_conf             88607999708947678985327873586525799718884301164553899999714788964799982799857873


Q ss_pred             CCCC---CCEEEEEEECHHHHHHHHHHHHHHHHHHHHHCCCCCCC----------------------------CCCCCEE
Q ss_conf             0123---20112675075673245532234678877630675467----------------------------6211102
Q gi|254780842|r  211 PLRE---NFSSLVWIMESQEADFYYKLPVNEIARRLEQYLYPVIG----------------------------KIEVVTD  259 (384)
Q Consensus       211 P~~~---~~~~ivw~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~----------------------------~~~~~~~  259 (384)
T Consensus       240 PL~~~dd~~~slVW~~~~~~A~~L~~l~~~~F~~~L~~~F~~~lG~~~~~~~~~~~l~~~~~~~~~~~~pp~~~~~~~~~  319 (445)
T TIGR01988       240 PLPDNDDNRSSLVWTLPPEEAERLLALDDEEFLAELNRAFGSRLGDLPYLDQTDFALNELFFRSSEEQYPPLGAITLVGE  319 (445)
T ss_pred             CCCCCCCCEEEEEEECCHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCEECCCEEEEECCC
T ss_conf             58888896038997389799999867899899999999853315796556789999999873202440068237887687


Q ss_pred             EEEECCCCCCCHHHHHCCCCEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCC-----CCCCHHHHHHHHHHHHHHHHH
Q ss_conf             232022334304565379421011001138445653211212389999998525-----799079999999986799999
Q gi|254780842|r  260 VQIFQLSGMISHCFGKKRVVLVGEAAHALPPICGQGLNLSMRDVIILLNLFQSE-----HMSFRAIGNRYHAMRRGDIIK  334 (384)
Q Consensus       260 ~~~~pl~~~~~~~~~~~rv~liGDAAH~~~P~~GqG~n~ai~Da~~L~~~l~~~-----~~~~~~~l~~Y~~~R~~~~~~  334 (384)
T Consensus       320 R~~fPL~~~~A~~yv~~R~aLiGDAAHt~HPlAGQG~NLG~rDv~~La~~l~~a~~~g~DiG~~~~L~~Y~r~R~~dn~~  399 (445)
T TIGR01988       320 RAAFPLSLRHAKRYVAPRLALIGDAAHTVHPLAGQGLNLGLRDVAALAEVLVEARRRGEDIGSLAVLQRYERRRRFDNAA  399 (445)
T ss_pred             CCCCCCHHHHHHHHHCCCEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHH
T ss_conf             63044033435876259858980541357871001002007899999999999884566857777899999974998999


Q ss_pred             HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCHHHHHHHHHHHCC
Q ss_conf             9999999999863679899999999999985083789999998619
Q gi|254780842|r  335 RIVGTDLFNRSLFSRYPLLQILRAGTFHLLKRVTPLRHQVMRQSLF  380 (384)
Q Consensus       335 ~~~~~~~l~~~~~~~~~~~~~~R~~~l~~~~~~~~lk~~~~~~a~g  380 (384)
T Consensus       400 ~~~~~D~L~~lF~n~~~pl~~lR~~GL~~~~~~pplK~~~~~~a~G  445 (445)
T TIGR01988       400 MLGATDGLNRLFSNDFPPLRLLRNLGLRLLNLLPPLKNFIARQAMG  445 (445)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHCC
T ss_conf             9999999998740687789999989999874040589999998529