HHsearch alignment for GI: 254780295 and conserved domain: pfam01416
>pfam01416 PseudoU_synth_1 tRNA pseudouridine synthase. Involved in the formation of pseudouridine at the anticodon stem and loop of transfer-RNAs Pseudouridine is an isomer of uridine (5-(beta-D-ribofuranosyl) uracil, and id the most abundant modified nucleoside found in all cellular RNAs. The TruA-like proteins also exhibit a conserved sequence with a strictly conserved aspartic acid, likely involved in catalysis.
Probab=99.96 E-value=3.2e-30 Score=195.48 Aligned_cols=103 Identities=32% Similarity=0.487 Sum_probs=98.4
Q ss_pred HHHHHHCCHHEEEECCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHC
Q ss_conf 56765200110010245655333211033111123332001131588889999999999999997689988899999835
Q gi|254780295|r 145 AAQHLVGRHDFTTFRSIHCQASSPIRTIDHFDVNSFGNLIEIRVVARSFLHTQIRSFVGSLKLVGDGKWTSTDLEKALQA 224 (247)
Q Consensus 145 a~~~l~G~HdF~~F~~~~~~~~~~~R~I~~~~v~~~~~~i~i~i~g~~FL~~mVR~mVG~li~v~~g~~~~~~i~~~L~~ 224 (247)
T Consensus 1 aa~~~~G~hdF~~F~~~~~~~~~~~r~i~~~~~~~~~~~~~~~i~g~~Fl~~mvR~~vg~l~~vg~g~~~~~~v~~~L~~ 80 (103)
T pfam01416 1 AAKLYDGTHDFSGFQKQRTVQKSLIRTIEKIGIERDGELYVFEIKGNGFLYHQVRIMVGALLRTGKGVHALEQVVSLLNS 80 (103)
T ss_pred CHHHCEECCCHHHHHCCCCCCCCCEEEEEEEEEEECCCEEEEEEEECHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHC
T ss_conf 95583080166887289998999819999999998299999999900369999999999999998799999999999867
Q ss_pred CCCCCCCCCCCCCCCEEEEEEEC
Q ss_conf 88211666369898476330439
Q gi|254780295|r 225 QDRKECGPLAPPEGLYFDSVEYS 247 (247)
Q Consensus 225 ~~r~~~~~~APa~GL~L~~V~Y~ 247 (247)
T Consensus 81 ~~~~~~~~~ap~~gL~L~~v~Y~ 103 (103)
T pfam01416 81 KLRPPAPPTAPAVGLYLFHVRYD 103 (103)
T ss_pred CCCCCCCCCCCCCCCEEEEEECC
T ss_conf 88556867049987788210749