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=99.82  E-value=4.8e-19  Score=149.53  Aligned_cols=252  Identities=21%  Similarity=0.270  Sum_probs=173.7

Q ss_pred             CCCCCEEEECCCCCCEEEEECCCCCCCHHCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHCCCCCCCCC--CHHHHHHHH
Q ss_conf             357631420377762279730453210000100113567897776410278510223221024566686--213469999
Q gi|254780970|r  434 GGDAGVIRVEGHETKALAFSSDVTPRYVKADPFEGTKQAVAECWRNIIATGAKPLAITDNLNFGNPEKE--EIMGQFVHS  511 (737)
Q Consensus       434 g~DaaVv~~~~~~~~gia~s~g~~p~~~~~dP~~ga~~AV~Eal~Nl~a~Ga~Plait~~lnf~~P~~~--e~~~ql~~a  511 (737)
T Consensus        57 mDdA~v~~~~--nG~~~v~T~D~~~PiVd-dPY~~G~IAaaN~~SDiYAMG~~~i~~~l~~~~~~~kL~drer~~v~Rev  133 (372)
T TIGR00476        57 MDDAAVYERH--NGLSLVKTVDVITPIVD-DPYLFGRIAAANALSDIYAMGGLPIVALLILVGVSNKLSDRERIEVVREV  133 (372)
T ss_pred             CCCCEEEECC--CCEEEEEEEEEEEEEEC-CHHHHHHHHHHHHHHHHHHCCCCCHHHEEEEECCCCCCCCCCCCCHHHHH
T ss_conf             3431135317--98899996338983256-83554489987567777743773210143330356668754442010687


Q ss_pred             HHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCC--CCCCCCCCEEEEECCCCCCCCCEEECCCCCCCCCHHHHHH
Q ss_conf             99998522102886654432001123686667631112--2223335202331021438980751377665543267888
Q gi|254780970|r  512 VKGIREACQILDFPIVSGNVSFYNETNGQSIFPTPTIA--GVGILPDYSLMTRIDSAHEGDLILMIGNDGCHLDCSMYSL  589 (737)
Q Consensus       512 v~gl~d~c~~lgipivgGkvSl~n~t~~~~I~pTpvi~--~vG~v~d~~~~it~~~k~~Gd~I~liG~~~~~LggS~~~~  589 (737)
T Consensus       134 ~~G~~d~~reakt~~~GGh------til---~pwp~~Gg~vtgv~~~-~~~~~~~~a~~G~~L~L---TKP-LGtqv~~~  199 (372)
T TIGR00476       134 IKGFKDACREAKTALVGGH------TIL---NPWPVFGGAVTGVCPE-EEVITKSGAQVGDVLIL---TKP-LGTQVLVA  199 (372)
T ss_pred             HHHHHHHHHHCCEEEECCE------EEC---CCCCCCCCEEEEECCC-CCEECCCCCCCCCEEEE---ECC-CHHHHHHH
T ss_conf             7658888876890797362------112---7620005406310278-84752588742416785---175-16899998


Q ss_pred             HHHC----CCC-----CC-CCCCCHHHHHH------HH-------HHHHHHHHCCCEEEEEECCCCHHHHHHHHHHHCCC
Q ss_conf             8611----678-----99-96479899999------99-------99999999598069946486579999999984589
Q gi|254780970|r  590 ECAS----SNI-----GP-PPKVDCHLEKN------HG-------FFVLSMINAKKITACHDISTGGLIITLAEMTISSA  646 (737)
Q Consensus       590 ~~~~----~~~-----g~-~p~~d~~~~k~------~~-------~~v~~li~~g~I~S~HDiSdGGL~~aL~EMa~as~  646 (737)
T Consensus       200 ~~~~~~~~~~~nkik~~i~~ee~~~~~~~A~e~M~~~Nryalkal~~A~~~~~~~~~~A~TDvTGFGlLGH~~~~ak~~~  279 (372)
T TIGR00476       200 VEKKLDIFKDLNKIKLSILKEERELIINEAIENMARLNRYALKALRKAAELMNSKDAKALTDVTGFGLLGHAQEMAKNSN  279 (372)
T ss_pred             HHHCCCCHHCCCCEEEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEECCCCCCHHHHHHHHHHHCC
T ss_conf             76311200110414678607527889989999999888999999999887664418715311456545688999874078


Q ss_pred             CCEEEEE---CCCCCC------------------------------CHHHHHHCC--CCCCEEEEECHHHHHHHHH-HHH
Q ss_conf             7089980---566689------------------------------878887298--8321899996880998999-998
Q gi|254780970|r  647 KGMDIIL---PIEIEK------------------------------DPKPFLFGE--DQGRYVVCISPENQDLVMS-EAN  690 (737)
Q Consensus       647 ~G~~I~L---~~~~~~------------------------------d~~~~LFsE--s~Gr~ii~V~~~~~~~~~~-~~~  690 (737)
T Consensus       280 ~~~~~~~e~lP~l~~~~~~~k~~~~~~G~~~g~~~~~~G~L~~~~~~~~~~ll~~~~~S~~y~~~~~~~~~~~v~~G~~~  359 (372)
T TIGR00476       280 VEARIVYEKLPVLKKVEELSKLKGVPLGAIEGLETAGSGLLLSELPREKAALLCDPVKSGGYLFEVQKEVKEKVEKGTAK  359 (372)
T ss_pred             CEEEEEEECCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCHHCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             66999953088735457889863243312135421267422135707898642610105135776668885111010134


Q ss_pred             HCCCCEEEEEEE
Q ss_conf             579849998998
Q gi|254780970|r  691 NKNIPLRYLGKV  702 (737)
Q Consensus       691 ~~gi~~~~IG~V  702 (737)
T Consensus       360 ~~~v~~~~IgE~  371 (372)
T TIGR00476       360 EKEVELIEIGEV  371 (372)
T ss_pred             HHHCCEEEEEEE
T ss_conf             330450254310