HHsearch alignment for GI: 254780295 and conserved domain: TIGR00071
>TIGR00071 hisT_truA tRNA pseudouridine synthase A; InterPro: IPR001406 Transfer RNA-pseudouridine synthetase contains one atom of zinc essential for its native conformation and tRNA recognition and has a strictly conserved aspartic acid that is likely to be involved in catalysis. It is involved in the formation of pseudouridine at positions 38, 39 and 40 in the anticodon stem and loop of transfer-RNAs. Pseudouridine is the most abundant modified nucleoside found in all cellular RNAs.; GO: 0000049 tRNA binding, 0016439 tRNA-pseudouridine synthase activity, 0001522 pseudouridine synthesis, 0008033 tRNA processing.
Probab=100.00 E-value=0 Score=516.48 Aligned_cols=237 Identities=40% Similarity=0.612 Sum_probs=230.6
Q ss_pred CEEEEEEEECCCCCEEEEECCCCCCHHHHHHHHHHHHHC-----------CCEEEEECCCCCCCCEEEEEEEEEEECCCC
Q ss_conf 229999997166872004875387788999999999709-----------956999711213861222346886406321
Q gi|254780295|r 2 IRYCMIIEYNGSGYFGWQRQKNGSSIQGSIEKAIFLVTG-----------EIVVVHGAGRTDSGVHALRQVAHFDLVREW 70 (247)
Q Consensus 2 ~r~~~~i~YdGt~y~G~q~Q~~~~TVq~~le~aL~~~~~-----------~~~~~~~a~RTD~GVhA~~qv~~f~~~~~~ 70 (247)
T Consensus 1 ~kia~~iaY~G~~y~G~Q~QP~~~Tvq~~le~aL~~~~~i~~~nS~~l~~~~~~~~~aGRTDkGVHA~~Qv~sf~~~~~~ 80 (326)
T TIGR00071 1 RKIALKIAYDGSNYHGWQRQPNKRTVQGELEKALEKIGKISKENSEDLKKKKIKVISAGRTDKGVHALGQVISFDTPKEI 80 (326)
T ss_pred CEEEEEEEECCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHCCCEEEEECCCCCCEECCCCEEEEEECCCC
T ss_conf 97899997447665024771888982438999999872024220000421697799943777010105647999861778
Q ss_pred CCHHHHHH--HHHHHCCCCCCCCCC-CCCCCCCCCCEECCCCE-------------------------------------
Q ss_conf 10468999--998618887654344-32267775500021002-------------------------------------
Q gi|254780295|r 71 VPVILCKA--LNAYLKISDTISILN-LSIVDKQFHARFSAIRR------------------------------------- 110 (247)
Q Consensus 71 ~~~~~~~~--lN~~L~~p~~Irv~~-~~~v~~~FhaR~~a~~R------------------------------------- 110 (247)
T Consensus 81 ~~~~l~~~hvLN~~L--p~dI~v~~~~~~V~~~FhaRf~~~~R~YeYLi~~~~L~g~~~~S~L~R~~~~S~~E~~S~E~W 158 (326)
T TIGR00071 81 PDNKLNAKHVLNALL--PPDIRVKAVLEPVNDNFHARFSAQKRVYEYLIPTFSLIGPKRSSLLYRDVEESKRELESKEVW 158 (326)
T ss_pred CHHHHHHHHHHHHCC--CCCCEEEEEEEECCCCCCCCCCCCCCHHHHHCCCCCCCCCCCCCEEEECCCCCCCCCCCHHHH
T ss_conf 755557776664127--455578311120477888684333231212032110378897515665253210113314478
Q ss_pred ----------------------------------EEEEEEEECCCCCHHHHHHCCCCCCCCCHHHHHHHHHHHHCCHHEE
Q ss_conf ----------------------------------2355685244320233321024433333566556567652001100
Q gi|254780295|r 111 ----------------------------------SYLYRIITRQAPLALEKGRAWLIPKSLDCENMRIAAQHLVGRHDFT 156 (247)
Q Consensus 111 ----------------------------------~Y~Y~i~~~~~~~~~~~~~~~~~~~~lD~~~l~~a~~~l~G~HdF~ 156 (247)
T Consensus 159 ~~F~~~~~~~FS~~E~~~~~~~~~~~~~~~~~~~~YrY~~~~~~~~~~~~~-~~~hy~~~ld~~~~~~a~~~~~G~hdF~ 237 (326)
T TIGR00071 159 DEFKKDAREKFSTDELEALLDYVQKLRDEDDLVEHYRYILYNEKLPPLLAG-YATHYYSPLDLEKMRAAAKEFLGKHDFS 237 (326)
T ss_pred HHHHHHHCCCCCHHHHHHHHHHHCCCCCCCCHHHHCEEEECCCCCCHHHHH-HHCCCCCHHHHHHHHHHHHHCCCCCCCH
T ss_conf 899987324678789999998400000245424322021205655112342-2202253121899999876313642510
Q ss_pred EECCCC---CCCCCCCCCCCCCCCCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCCCCCCCC
Q ss_conf 102456---55333211033111123-33200113158888999999999999999768998889999983588211666
Q gi|254780295|r 157 TFRSIH---CQASSPIRTIDHFDVNS-FGNLIEIRVVARSFLHTQIRSFVGSLKLVGDGKWTSTDLEKALQAQDRKECGP 232 (247)
Q Consensus 157 ~F~~~~---~~~~~~~R~I~~~~v~~-~~~~i~i~i~g~~FL~~mVR~mVG~li~v~~g~~~~~~i~~~L~~~~r~~~~~ 232 (247)
T Consensus 238 nF~~~~~~~~~~~~~~R~i~~~~~~~~~~~~~~~~I~G~~FL~~mVR~iV~~l~~~g~~~~~~e~~~~ll~~~~r~~~~~ 317 (326)
T TIGR00071 238 NFSKAKGAKSKSRSPVRTISKIKVSEESGEYIIFDIIGNSFLWHMVRKIVGALVLVGRGKLPPEWVQKLLDAKKRELAPT 317 (326)
T ss_pred HHCCCCCCCCCCCCCEEEEEEEEEEECCCCEEEEEEEECCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCCCCCC
T ss_conf 01000025677777258898889962588889999885430388899999999997516888899999854677575676
Q ss_pred CCCCCCCEE
Q ss_conf 369898476
Q gi|254780295|r 233 LAPPEGLYF 241 (247)
Q Consensus 233 ~APa~GL~L 241 (247)
T Consensus 318 ~ap~~gL~L 326 (326)
T TIGR00071 318 TAPANGLYL 326 (326)
T ss_pred CCCCCCCCC
T ss_conf 887567889