HHsearch alignment of GI: 254780608 and MMDB domain: 1k8w_A_1-79_225-253

>1k8w_A (A:1-79,A:225-253) TRNA pseudouridine synthase B; protein-RNA complex, T stem-loop, lyase/RNA complex; HET: FHU; 1.85A {Escherichia coli}

Probab=92.08  E-value=0.068  Score=31.61  Aligned_cols=55  Identities=20%  Similarity=0.298  Sum_probs=37.5

Q ss_pred             EECCCEEEECCCCCCEEECCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCEEEEECCCCH
Q ss_conf             6178568841765311223578533233201101111100133354453422240462123101
Q gi|254780608|r  103 YEDSKIYVFNKPAGISVQGGSGIAYHIDGFLKSWVDSKGQKPRLTHRLDQETSGILVVARTRAA  166 (346)
Q Consensus       103 yED~~livinKPaGl~vhp~~g~~~~~~~~l~~~~~~~~~~~~lVHRLDr~TSGlll~AK~~~a  166 (346)
                      ++-+.|++||||.|+.+|.       +...+....+  ..+.+-..-||-..||||+++-.+.+
T Consensus        22 ~~~~Gil~idKP~G~TS~~-------vV~~vkk~l~--~kKVGH~GTLDP~AtGvLiv~iG~aT   76 (108)
T 1k8w_A           22 MDINGVLLLDKPQGMSSND-------ALQKVKRIYN--ANRAGHTGALDPLATGMLPICLGEAT   76 (108)
T ss_dssp             CCCCEEEEEEECTTCCHHH-------HHHHHHHHTT--CSCEEESSCCCTTCEEEEEEEEGGGG
T ss_pred             CCCCEEEEEECCCCCCHHH-------HHHHHHHHHC--CCCCCCCCCCCCCCEEEEEEEECHHH
T ss_conf             8853699984799899899-------9999999858--99687686579746135999988888