HHsearch alignment for GI: 254780970 and conserved domain: TIGR00476

>TIGR00476 selD selenide, water dikinase; InterPro: IPR004536 In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3' or 5' non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This family describes SelD, known as selenophosphate synthetase, selenium donor protein, and selenide, water dikinase. SelD provides reduced selenium for the selenium transferase SelA. This protein itself contains selenocysteine in many species; any sequence scoring above the trusted cut-off but not aligning to the beginning of the HMM is likely have selenocysteine residue incorrectly interpreted as a stop codon upstream of the given sequence.; GO: 0004756 selenide water dikinase activity, 0005524 ATP binding.
Probab=99.49  E-value=3.1e-13  Score=109.74  Aligned_cols=269  Identities=19%  Similarity=0.251  Sum_probs=184.1

Q ss_pred             CCCEEEC--CC------CCEEEEEECCCEEEEEEECCCCCCCCCCCC-CC--CCCCCCCCCCCCCCCCCEEEEEEEECCC
Q ss_conf             9748993--34------773689836983999995178877765888-87--2105581022576778743687750457
Q gi|254780970|r   64 GKHVIQG--PG------ENAGVVDIGGGDCVVFKMESHNHPSYIEPY-QG--AATGVGGILRDIFTMGARPVAAMNSLRF  132 (737)
Q Consensus        64 ~~~vi~~--~~------~~a~vi~~~~~~~~~~k~EtHNhPs~i~P~-~G--AaTg~gG~iRDi~~~Ga~p~a~~~~l~~  132 (737)
T Consensus        41 ~~n~lvG~~~~rlGiGmDdA~v~~~~nG~~~v~T~D~-~~PiVddPY~~G~IAaaN~---~SDiYAMG~~~i~~~l~~~~  116 (372)
T TIGR00476        41 DDNLLVGAVLRRLGIGMDDAAVYERHNGLSLVKTVDV-ITPIVDDPYLFGRIAAANA---LSDIYAMGGLPIVALLILVG  116 (372)
T ss_pred             CCCCEECCCCCCCCCCCCCCEEEECCCCEEEEEEEEE-EEEEECCHHHHHHHHHHHH---HHHHHHCCCCCHHHEEEEEC
T ss_conf             7210101000104323343113531798899996338-9832568355448998756---77777437732101433303


Q ss_pred             CCCCCC--CHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCCCCEEEECCCCHHHHHHCCCCCCCCEEEEECCC
Q ss_conf             875686--388899888745886654308721132035521567664221122112113554311225689779996576
Q gi|254780970|r  133 GAIHHP--KTKHLLSGVVAGIAGYSNSFGVPTVGGEVEFLPCYNNNIIVNTFAAGIAKTNAIFSSKARGIGLPLVYLGAK  210 (737)
Q Consensus       133 g~~~~p--~~~~~~~~~~~G~~~ygN~~G~P~v~G~~~~~~~y~~~~~v~~~~~Gi~~~~~~~~~~~~~~Gd~ii~~G~~  210 (737)
T Consensus       117 ~~~kL~drer~~v~Rev~~G~~d~~reakt~~~GGhtil~----pwp~~Gg~vtgv~~~~~~~~~~~a~~G~~L~LT-KP  191 (372)
T TIGR00476       117 VSNKLSDRERIEVVREVIKGFKDACREAKTALVGGHTILN----PWPVFGGAVTGVCPEEEVITKSGAQVGDVLILT-KP  191 (372)
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHCCEEEECCEEECC----CCCCCCCEEEEECCCCCEECCCCCCCCCEEEEE-CC
T ss_conf             5666875444201068776588888768907973621127----620005406310278847525887424167851-75


Q ss_pred             CCCCCCHHHHHHHHHHCCCCC---CCCCCCCCCCHHHHHHH-----------HHHH---HHHCCCCCCHHCCCCCCCCHH
Q ss_conf             564441046666777286533---34443326798999888-----------9998---740113830110347752011
Q gi|254780970|r  211 TGRDGIGGASMASEEFGENIA---KKRPTVQVGDPFTGKCL-----------LEAC---LELMNTDAVIAIQDMGAAGLT  273 (737)
Q Consensus       211 tg~dGi~Ga~~sS~~~~~~~~---~~~~~VQ~gdp~~ek~~-----------~~~~---~~~~~~~~i~~~~D~gaGGl~  273 (737)
T Consensus       192 ---LGtqv~~~~~~~~~~~~~~nkik~~i~~ee~~~~~~~A~e~M~~~Nryalkal~~A~~~~~~~~~~A~TDvTGFGlL  268 (372)
T TIGR00476       192 ---LGTQVLVAVEKKLDIFKDLNKIKLSILKEERELIINEAIENMARLNRYALKALRKAAELMNSKDAKALTDVTGFGLL  268 (372)
T ss_pred             ---CHHHHHHHHHHCCCCHHCCCCEEEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEECCCCCCHH
T ss_conf             ---16899998763112001104146786075278899899999998889999999998876644187153114565456


Q ss_pred             HHHHHHHCCCCCCEEEEEHHHCCCCC----------------C------------CCHH-HHHHCCCC--CEEEEEEECC
Q ss_conf             12233201477528996202204667----------------8------------9998-98617888--5089999546
Q gi|254780970|r  274 CSAIEMGNQGNLGITLDLDKVPTCEE----------------G------------MTAY-EMMLSESQ--ERMLMILNPE  322 (737)
Q Consensus       274 ~a~~Ema~~~~~G~~i~l~~vp~~~~----------------~------------l~~~-ei~~sEsQ--eR~~~~v~~~  322 (737)
T Consensus       269 GH~~~~ak~~~~~~~~~~e~lP~l~~~~~~~k~~~~~~G~~~g~~~~~~G~L~~~~~~~~~~ll~~~~~S~~y~~~~~~~  348 (372)
T TIGR00476       269 GHAQEMAKNSNVEARIVYEKLPVLKKVEELSKLKGVPLGAIEGLETAGSGLLLSELPREKAALLCDPVKSGGYLFEVQKE  348 (372)
T ss_pred             HHHHHHHHHCCCEEEEEEECCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCHHCCCHHHHHHHHH
T ss_conf             88999874078669999530887354578898632433121354212674221357078986426101051357766688


Q ss_pred             CHHHHHH-HHHHHCCEEECCCCE
Q ss_conf             7588999-888709713112212
Q gi|254780970|r  323 KQHKAQE-ILNKWGLHFSIIGIT  344 (737)
Q Consensus       323 ~~~~~~~-i~~~~~~~~~~iG~v  344 (737)
T Consensus       349 ~~~~v~~G~~~~~~v~~~~IgE~  371 (372)
T TIGR00476       349 VKEKVEKGTAKEKEVELIEIGEV  371 (372)
T ss_pred             HHHHHHHHHHHHHHCCEEEEEEE
T ss_conf             85111010134330450254310