HHsearch alignment for GI: 254781024 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=99.91 E-value=3.8e-22 Score=172.77 Aligned_cols=342 Identities=17% Similarity=0.109 Sum_probs=211.5
Q ss_pred CEEEECCCHHHHHHHHHHHHCC---CCCEEEEEECCCCCCC-CCCCCCEECHH-------H---HHHHCCCHHHHCCCCC
Q ss_conf 7799989768999999999808---9973999978677898-64027403336-------7---8886787264148854
Q gi|254781024|r 16 DVVIIGAGPAGLAAAIRCKQIN---PHLSVVILEKSAEVGA-HILSGAIIDPI-------G---IDSLLPRWREDKGHPF 81 (554)
Q Consensus 16 DVvIVGaGPAG~saA~~La~~g---~~l~VlvlEK~~~pG~-~i~sG~vl~p~-------a---L~eL~Pd~~e~~g~pl 81 (554)
T Consensus 1 Di~IvGgG~VG~~lA~aL~~~~~~~~~L~~~l~e~~~~~~~~~~~~~~~~D~R~~Al~~~S~~~L~~-lG~W~~~~-~~~ 78 (445)
T TIGR01988 1 DIVIVGGGMVGLALALALASSGSRLKGLKVALIEAQPAEAPSFFAATPGFDNRVSALSAASIRLLEK-LGVWDKIE-PDR 78 (445)
T ss_pred CEEEECCCHHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCEEEHHHHHHHHHHH-CCCCHHHH-HHH
T ss_conf 9688847388999999984186312473179960521144221125876552201010799999986-79644520-121
Q ss_pred CCEEEEEEEEEECCCC------CEECCCCCCCCCC--CCCCCEEEEHHHHHHHHHHHHHHCC---CEECCCCEEEEEEEC
Q ss_conf 3224366999977997------6773654356544--6788268888898999999998749---533068224347762
Q gi|254781024|r 82 HTVVKRDLYWFLNAQR------SIQIPHFCLPDFM--DNKEHYIVSLGQVCRWLKNKAEALG---VEIYCGFTATEIYYG 150 (554)
Q Consensus 82 ~~~v~~d~~~~l~~~~------~~~~p~~~~p~~~--~~~g~yiv~r~~fd~~L~~~Ae~~G---vei~~g~~v~~i~~~ 150 (554)
T Consensus 79 ~~p~~~~~V~D~~~~g~~~~P~~~~F~~~~---~~~~~~~LG~~ven~~~~~aL~~~~~~~~~~~~~~~~~~~~~~~~~~ 155 (445)
T TIGR01988 79 AQPIRDIHVSDGGSFGRAPHPAALHFDADE---VGGPAEALGYVVENRVLQQALWEALQELPNEKVTLLCPARVEELPRH 155 (445)
T ss_pred CCCCCEEEEEECCCCCCCCCCEEEEECHHH---CCCCCCCCCEEECHHHHHHHHHHHHHHCCCCEEEEECCCEEEEEECC
T ss_conf 263204888726788888886368744344---17880112367118899999999999668964775167214774036
Q ss_pred -----CCCCEEEEEECCCCCCCCCCCCCCCCCEEE---EEEEEEEEECCCCCHHHHHHHHHCCCC-CCCCHHHHHHHHHH
Q ss_conf -----776201454124324434665787563026---774257860664432554211224899-88889899889888
Q gi|254781024|r 151 -----KKGEALGILTGEKGKNYDGTQGKHYIAPML---LLSKYMLVGEGACGSLTRQLIERYSLM-DGRQPQKFGLGIKE 221 (554)
Q Consensus 151 -----e~g~vvgv~t~~~G~~k~~~~~~~~~~g~~---i~Ak~vI~AdG~~s~lak~l~~~~~l~-~~~~p~~~~~gvke 221 (554)
T Consensus 156 ~~~~~~~~v~~--~L~~---------------G~~~~~l~a~LlvgADG~~S~vR~~~gI~~~~~R~Y~--Q-~--a~-- 211 (445)
T TIGR01988 156 SSKNDSDEVEL--TLSD---------------GRQKLLLRARLLVGADGANSKVRQLAGIPTTGWRDYG--Q-S--AV-- 211 (445)
T ss_pred CCCCCCCCEEE--EECC---------------CCEEEEEEECEEEEECCCCHHHHHHHCCCCCEEECCC--C-E--EE--
T ss_conf 77568860799--9708---------------9476789853278735865257997188843011645--5-3--89--
Q ss_pred HHHHCCCCCCCCEEEEEECCCCCCCCCCCEEEEECC---CCEEEEEEEECCCCCCC--CCCHHHHHHHHHHCCCHHHHHC
Q ss_conf 875165667888089950434768766412576647---98059999832666566--8898899999860800456503
Q gi|254781024|r 222 LWKIKPQYHRRGLALHSIGWPLDMNTSGGGFVYHFD---DNLVSIGFVLHLDYRNP--WISAYEELQRFKTHPDIRIIFT 296 (554)
Q Consensus 222 ~~ei~~~~~~~G~~~h~~g~~~~~~~~gggwiy~~~---d~~~~iG~v~~ld~~~~--~~~~~~~lq~fk~hp~i~~~l~ 296 (554)
T Consensus 212 Va~v~~~~~h~~~A~erF~---~-~~GP~AlL-PL~~~dd~~~slVW~~~~~~A~~L~~l~~~~F~~~L~~--~F~~~l- 283 (445)
T TIGR01988 212 VANVKHERPHQGTAWERFL---P-DTGPLALL-PLPDNDDNRSSLVWTLPPEEAERLLALDDEEFLAELNR--AFGSRL- 283 (445)
T ss_pred EEEEEECCCCCCEEEEEEE---C-CCCCEEEC-CCCCCCCCEEEEEEECCHHHHHHHHCCCHHHHHHHHHH--HHHHHC-
T ss_conf 9999714788964799982---7-99857873-58888896038997389799999867899899999999--853315-
Q ss_pred C----------------------------CCEECCCCEECCCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCCHHHHHHH
Q ss_conf 8----------------------------826303513400542124874230887996123233136643522689999
Q gi|254781024|r 297 E----------------------------GERLEYGARVISEGGWQSVPKLSFPGGSLIGCAAGFVNLLRIKGSHNAIIS 348 (554)
Q Consensus 297 g----------------------------g~~~~yga~~ip~gg~~s~pk~~~~g~lLvGDAAG~vnP~~g~GI~~Am~S 348 (554)
T Consensus 284 G~~~~~~~~~~~l~~~~~~~~~~~~pp~~~~~~~~~R~~fPL~~~~-A~~yv~~R~aLiGDAAHt~HPlAGQG~NLG~rD 362 (445)
T TIGR01988 284 GDLPYLDQTDFALNELFFRSSEEQYPPLGAITLVGERAAFPLSLRH-AKRYVAPRLALIGDAAHTVHPLAGQGLNLGLRD 362 (445)
T ss_pred CCCCHHHHHHHHHHHHHHHHHCCEECCCEEEEECCCCCCCCCHHHH-HHHHHCCCEEEEECCCCCCCCCCCCCCCCCHHH
T ss_conf 7965567899999998732024400682378876876304403343-587625985898054135787100100200789
Q ss_pred HHHHHHHHHHHHHCC-CCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 999999999987458-865--303678998642046678887422566887
Q gi|254781024|r 349 GMLAAEKIVERLSNG-KKH--DDPIEIEDSWRQTQIGKDLWIIRNIKPLLS 396 (554)
Q Consensus 349 G~lAAEai~eal~~g-~~~--~~l~~Ye~~~~~s~~~~el~~~rn~~~~~~ 396 (554)
T Consensus 363 v~~La~~l~~a~~~g~DiG~~~~L~~Y~r~R~~d-n~~~~~~~D~L~~lF~ 412 (445)
T TIGR01988 363 VAALAEVLVEARRRGEDIGSLAVLQRYERRRRFD-NAAMLGATDGLNRLFS 412 (445)
T ss_pred HHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHH
T ss_conf 9999999999884566857777899999974998-9999999999998740