HHsearch alignment for GI: 254780608 and conserved domain: cd02553
>cd02553 PseudoU_synth_RsuA PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. E.coli RsuA makes psi516 in 16S RNA. Psi at this position is not generally conserved in other organisms.
Probab=99.61 E-value=1.5e-15 Score=118.16 Aligned_cols=140 Identities=19% Similarity=0.263 Sum_probs=91.5
Q ss_pred EEEECCCCCCEEECCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCEEEEECCCCHHHHHCCCCCCCCCCCCCCCCC
Q ss_conf 68841765311223578533233201101111100133354453422240462123101222102333322111200013
Q gi|254780608|r 108 IYVFNKPAGISVQGGSGIAYHIDGFLKSWVDSKGQKPRLTHRLDQETSGILVVARTRAAAQHLTESFRMRRIQKIYWSLV 187 (346)
Q Consensus 108 livinKPaGl~vhp~~g~~~~~~~~l~~~~~~~~~~~~lVHRLDr~TSGlll~AK~~~a~~~l~~~f~~~~v~K~Y~Aiv 187 (346)
T Consensus 2 YillnKP~G~v~t~~d~~~ktv~dll~~~~--~~~~l~~vGRLD~~s~GLLLlTNDG~l~~~l~h--P~~~i~K~Y~V~v 77 (167)
T cd02553 2 YLMLNKPAGVVCATKDPHHPTVIDLLPEPD--RRRDLFPVGRLDKDTTGLLLLTNDGQLAHRLTS--PKKHVPKTYEVTL 77 (167)
T ss_pred EEEEECCCCEEECCCCCCCCCHHHHCCCCC--CCCCEEECCCCCCCCCCEEEECCCHHHHHHHHC--CCCCCCEEEEEEE
T ss_conf 999988999796988999997744335500--367556744568997622999188889976414--4478888999987
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CEEEEECCHHHHHHCCCCEEEEEECHHHHHHHHHHHHHCCCCE
Q ss_conf 456541000000012234655432111335555555-3034301013432024420457861237899999999639800
Q gi|254780608|r 188 WGIPKNKKECIANWLLKKSHIGGDYVHVVKQNEKGA-NYAISHFKVIDCFAQKFCWLEMQPHTGRTHQLRVHALHMGCPI 266 (346)
Q Consensus 188 ~G~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~-k~a~T~~~vl~~~~~~~slv~~~l~TGR~HQIRvhl~~~g~Pi 266 (346)
T Consensus 78 ~~~i~~~~--l~~l-~~-G------v~-----i~dg~~~~~~~v~~~---~~--~~~~i~l~eGknrqIRrm~~~~g~~V 137 (167)
T cd02553 78 AGPLTEDD--IEAF-AE-G------VL-----LHDGYPTKPAKLEIL---SP--TTVRLTITEGKYHQVKRMFAAVGNKV 137 (167)
T ss_pred CCCCCHHH--HHHH-HC-C------CE-----ECCCCEEEEEEEEEE---CC--CEEEEEEECCCCHHHHHHHHHCCCEE
T ss_conf 67899999--9999-76-9------89-----649859751799992---58--68999998884629999999869888
Q ss_pred ECCCC
Q ss_conf 04644
Q gi|254780608|r 267 VGDHK 271 (346)
Q Consensus 267 vGD~~ 271 (346)
T Consensus 138 ~~L~R 142 (167)
T cd02553 138 VALHR 142 (167)
T ss_pred EEEEE
T ss_conf 58999