HHsearch alignment for GI: 254780927 and conserved domain: TIGR03400
>TIGR03400 18S_RNA_Rcl1p 18S rRNA biogenesis protein RCL1. Members of this strictly eukaryotic protein family are not RNA 3'-phosphate cyclase (6.5.1.4), but rather a homolog with a distinct function, found in the nucleolus and required for ribosomal RNA processing. Homo sapiens has both a member of this RCL (RNA terminal phosphate cyclase like) family and EC 6.5.1.4, while Saccharomyces has a member of this family only.
Probab=96.90 E-value=0.038 Score=33.46 Aligned_cols=109 Identities=21% Similarity=0.228 Sum_probs=57.2
Q ss_pred HHHHHHHCCCCEEEECCCCH------HH-HHHHHHHHHHC--CCEEEEECCCCEEEECCCCEEEEECCCCCCCCCCHHHH
Q ss_conf 99999746996999869836------99-99999999974--98999927741142024525999436665864440234
Q gi|254780927|r 28 VMIASLLTSETLTLENIPDL------AD-VKLLIRILRSH--GVEILSDSSYNDQNKSYSSTMHFRCRHIVDLTGSYDLV 98 (430)
Q Consensus 28 al~aaaLa~g~s~i~n~~~s------~D-~~~~~~~l~~l--G~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 98 (430)
T Consensus 12 ~laLS~ltgkpv~I~nIR~~r~~PGL~~qh~~~l~l~~~i~~g~~~~~~~~~--------t~l~f~Pg~i~gg~~~~-d~ 82 (360)
T TIGR03400 12 RLVLSTLSGKPVRITKIRSDDENPGLRDYEVSFLRLLEKVTNGSKIEISYTG--------TTVIYKPGLITGGSVTH-EC 82 (360)
T ss_pred HHHHHHHHCCCEEEEEECCCCCCCCCHHHHHHHHHHHHHHCCCCEECCCCCC--------EEEEEECCCCCCCCEEE-EC
T ss_conf 9999997599889998558997988479999999999985385484021471--------59999788121872799-66
Q ss_pred HHCCCCCCCCCCCC--CCC--CCEEEECCCCCCCC-CCHHHHH----HHHHHHCCC
Q ss_conf 31132110225332--333--21045305866333-2012123----433321033
Q gi|254780927|r 99 SKMRASFWVIGPLL--ARE--GYARISLPGGCAIG-TRPVDLF----VDSLKSLGV 145 (430)
Q Consensus 99 ~~~r~s~~~l~~ll--a~~--~~~~v~l~G~~~l~-~RP~~~l----~~~L~~lGa 145 (430)
T Consensus 83 ~tagsi~l~lq~~lp~~~f~~~~~~l~l~GgT~~~~~psvD~~~~v~lp~l~~fGi 138 (360)
T TIGR03400 83 PTTRGIGYYLEPLLLLAPFSKKPLSITLKGITNSTGDPSVDTIRTATLPLLKKFGI 138 (360)
T ss_pred CCCCEEHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHCC
T ss_conf 88843089999999888636997699997503899897689999999999998299