HHsearch alignment of GI: 254780610 and MMDB domain: 2apo_A_51-266

>2apo_A (A:51-266) Probable tRNA pseudouridine synthase B; protein-protein complex, box H/ACA, snoRNP, pseudouridine synthase, RNA modification; 1.95A {Methanocaldococcus jannaschii}
Probab=96.87  E-value=0.0007  Score=42.52  Aligned_cols=85  Identities=19%  Similarity=0.171  Sum_probs=52.9

Q ss_pred             CCCCEEEEEECCCHHHCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHHHHHHH
Q ss_conf             14402789962401110456787542100222222102443344443643244443323240572120357888899999
Q gi|254780610|r   94 YEDDDIIVINKPAGLVVHPAPGNWTGTLVNALLYHCHNNLSSINGVKRPGIVHRLDKDTTGVMVVAKNDLAHQKLSEQFV  173 (340)
Q Consensus        94 yED~~llvinKPaGl~vhp~~~~~~~tl~~~l~~~~~~~~~~~~~~~~~~lVHRLDr~TSGlll~Ak~~~a~~~l~~~f~  173 (340)
                      |--+.|+++|||+|+.+|.        +++.+.+.+..        .+.+-...||-..||+|+++-+...  .+...| 
T Consensus        13 ~~~~G~l~i~KP~g~tS~~--------vv~~~k~~~~~--------~kvgh~GtLDp~a~GvLiv~ig~~T--kl~~~~-   73 (216)
T 2apo_A           13 LIKYGVVVVDKPRGPTSHE--------VSTWVKKILNL--------DKAGHGGTLDPKVTGVLPVALERAT--KTIPMW-   73 (216)
T ss_dssp             HHHTEEEEEEECSSSCHHH--------HHHHHHHHTTC--------SCEEESSCCCTTCEEEEEEEEGGGG--GGGGGT-
T ss_pred             HHCCCEEEEECCCCCCHHH--------HHHHHHHHHCC--------CCCCCCCCCCCCCCCCHHHEECHHH--HHHHHH-
T ss_conf             8549989997999899899--------99999998487--------7357787789634365532118653--221775-


Q ss_pred             HHCCCCCEEEEEEEEEECCCCCCCCCCCC
Q ss_conf             72113221334454320243323321100
Q gi|254780610|r  174 DHGKSTRLKRAYYAMVWGIPLPDSGIINA  202 (340)
Q Consensus       174 ~~~~~~~v~K~Y~Aiv~G~~~~~~g~i~~  202 (340)
                           ..-.|+|.|.+.=-...++..++.
T Consensus        74 -----~~~~K~Y~~~~~lG~~Tdt~di~~   97 (216)
T 2apo_A           74 -----HIPPKEYVCLMHLHRDASEEDILR   97 (216)
T ss_dssp             -----TSSCEEEEEEEEESSCCCHHHHHH
T ss_pred             -----CCCCCEEEEEEEEEECCCCCHHHH
T ss_conf             -----058827999999831243214999