HHsearch alignment for GI: 254780610 and conserved domain: cd02558
>cd02558 PSRA_1 PSRA_1: Pseudouridine synthase, a subgroup of the RluA family. This group is comprised of bacterial proteins assigned to the RluA family of pseudouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. The RluA family is comprised of proteins related to Escherichia coli RluA.
Probab=100.00 E-value=0 Score=452.74 Aligned_cols=241 Identities=22% Similarity=0.260 Sum_probs=192.4
Q ss_pred EEECCEEECCCCCEECCCCEEEEEECCCHHCCHHHHHHHHHHCCCCCEEEEEECCCHHHCCCCCCCCCCCCHHHHHHHHC
Q ss_conf 04998993286758048988999705601111023322222101440278996240111045678754210022222210
Q gi|254780610|r 51 ISINGMVSKNPNRKVVPGDSFLITVPAAQKLNIAQENIPLDILYEDDDIIVINKPAGLVVHPAPGNWTGTLVNALLYHCH 130 (340)
Q Consensus 51 V~vnG~~~~~~~~~l~~gd~I~i~~~~~~~~~~~~~~~~~~IlyED~~llvinKPaGl~vhp~~~~~~~tl~~~l~~~~~ 130 (340)
T Consensus 4 v~~~G~~v~-~~~~l~~Gd~v~~~~~~~~e~p---~p~~l~IlyEDd~llVVnKPaGl~vhP~~~~~~~tl~~~l~~~~~ 79 (246)
T cd02558 4 VDADGEPLD-PDSPYRPGTFVWYYRELPDEPP---IPFEETILHQDEHLLVADKPHFLPVTPRGRYVTETLLVRLRRQTG 79 (246)
T ss_pred ECCCCEECC-CCCEECCCCEEEEEECCCCCCC---CCCCCCEEEECCCEEEEECCCCCCEEECCCCCCCHHHHHHHHHCC
T ss_conf 880997979-9987279999999805899999---999899899789999999999985761899720179999988409
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHHHHHHHHHCCCCCEEEEEEEEEECCCCCCCC-CCCCCCCCCCC
Q ss_conf 24433444436432444433232405721203578888999997211322133445432024332332-11001343444
Q gi|254780610|r 131 NNLSSINGVKRPGIVHRLDKDTTGVMVVAKNDLAHQKLSEQFVDHGKSTRLKRAYYAMVWGIPLPDSG-IINAPLGRCKS 209 (340)
Q Consensus 131 ~~~~~~~~~~~~~lVHRLDr~TSGlll~Ak~~~a~~~l~~~f~~~~~~~~v~K~Y~Aiv~G~~~~~~g-~i~~~l~~~~~ 209 (340)
T Consensus 80 ~--------~~~~~VHRLDr~TSGllv~AK~~~a~~~l~~~f~----~r~v~K~Y~Alv~~~~~~~~~~~~~~~~~~~-- 145 (246)
T cd02558 80 N--------PDLTPAHRLDRLTAGLVLFSKRPETRGAYQTLFA----RREVSKTYEAVAPYVPALTFPLTVRSRIVKG-- 145 (246)
T ss_pred C--------CCCCEECCCCCCCCEEEEEECCHHHHHHHHHHHH----CCCCCEEEEEEEECCCCCCCCEEECCCCCCC--
T ss_conf 9--------8654734679987469999889999999999864----6845279999998337767863663655788--
Q ss_pred CCCCCCCCCCCCCCCCCCEECCCCCEEECCCCCCCCCEEEEEECHHHHHHHHHHHHHHCCEEECCCCCCCCCCCCCCCCC
Q ss_conf 33221234445555530000122210112566775001234431158999999998709786041544775544433457
Q gi|254780610|r 210 NRLRRAVKGIDDKTADSAITHYQTIEIYNKNSNFAVSLLKCHLETGRTHQIRVHMAHKGNPLIGDPLYGKGFKTKANIVN 289 (340)
Q Consensus 210 ~~~~~~~~~~~~~~~k~a~T~~~~l~~~~~~~~~~~slv~~~~~TGRtHQIRvhla~lG~PIvGD~~YG~~~~~~~~~~~ 289 (340)
T Consensus 146 -~~~~~--~~~~~g~~~A~T~~~~l~~~-----~~~slv~~~~~TGRtHQIRvHla~iGhPIvGD~~Yg~~~~~~~~~-- 215 (246)
T cd02558 146 -RGFFQ--AREVEGEPNAETRIELLARR-----GGWGLYRLSPHTGKTHQLRVHMAALGVPILNDPFYPVLLDKDPDD-- 215 (246)
T ss_pred -CCCEE--EECCCCCCCEEEEEEEEEEC-----CCEEEEEEEECCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCC--
T ss_conf -76448--98058998769999999983-----985899999687862999999998799350783777644344334--
Q ss_pred CHHHHHHCCCCCHHHHHCEEEEECCCCCCEEEEECCCC
Q ss_conf 01355440798044321000424688976899984997
Q gi|254780610|r 290 NNAKSAILSLARQALHAHSLSFSHPRNNQDMDFQVPIP 327 (340)
Q Consensus 290 ~~~~~~~~~~~r~~LHA~~l~f~hP~t~~~~~f~aplP 327 (340)
T Consensus 216 --------~~~~l~LHA~~L~F~HP~T~e~m~F~aP~~ 245 (246)
T cd02558 216 --------FSRPLQLLAKELEFTDPLTGRPRRFESGRS 245 (246)
T ss_pred --------CCCCCHHHHCEEEEECCCCCCEEEEECCCC
T ss_conf --------463302520784878929989889968998