HHsearch alignment for GI: 254781020 and conserved domain: TIGR00737

>TIGR00737 nifR3_yhdG putative TIM-barrel protein, nifR3 family; InterPro: IPR004652 This family represents one branch of COG0042 from COG (Predicted TIM-barrel enzymes, possibly dehydrogenases, nifR3 family) and includes NifR3 itself, from Rhodobacter capsulatus. Members of this family catalyse the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes , and also in some archaea. Most dihydrouridines are found in the D loop of t-RNAs. The role of dihydrouridine in tRNA is currently unknown, but may increase conformational flexibility of the tRNA. ; GO: 0016491 oxidoreductase activity, 0050660 FAD binding, 0008033 tRNA processing.
Probab=97.20  E-value=0.0043  Score=36.60  Aligned_cols=123  Identities=18%  Similarity=0.138  Sum_probs=80.3

Q ss_pred             CCCHHHHCCHHHHH-HHHHHHHCCC---HHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCEEEECCCCHHHHHHHCCCCCH
Q ss_conf             52022112866888-9999986640---1232202752123679989999877650898576253203566520688524
Q gi|254781020|r   93 GSQRVMFSDHNAIK-SFELRQYAPH---TVLISNLGAVQLNYDFGVQKAHQAVHVLGADGLFLHLNPLQEIIQPNGNTNF  168 (337)
Q Consensus        93 g~~~~~~~~~~~~~-~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (337)
T Consensus       116 ~aGsaLl~~p~~~~~iv~~vV~AV~~~~iPVTVK~R~GWD~~h~n~~~~a~~a~~~Ga~Av~lHGRTRaQ------~Y~G  189 (336)
T TIGR00737       116 GAGSALLRDPDLIGKIVKAVVDAVDAQDIPVTVKIRIGWDDAHINAVEAARIAEDAGAQAVTLHGRTRAQ------GYEG  189 (336)
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCHHHHHHHHHHCCCCEEEHHHHHHCC------CCCC
T ss_conf             6354323586899999999998751876651665515636244888999999987240002111000001------5788


Q ss_pred             HHHHHHHHHHHHHCC----CCEEEEECCCCCCHHHHHHHH-HCCCCEEEEC-CCCCCCCCC
Q ss_conf             307999999998739----971785047866889999999-7699799945-888865100
Q gi|254781020|r  169 ADLSSKIALLSSAMD----VPLLLKEVGCGLSSMDIELGL-KSGIRYFDIA-GRGGTSWSR  223 (337)
Q Consensus       169 ~~~~~~i~~l~~~~~----~pii~k~v~~~~~~~~~~~a~-~aGad~i~v~-~~gG~~~~~  223 (337)
T Consensus       190 ~A~wd~I~~vKq~v~~~GeiPVig--NGDi~~~~~A~~~L~~TG~DGvm~gRG~lG~PWl~  248 (336)
T TIGR00737       190 EANWDIIARVKQAVRKEGEIPVIG--NGDIFSPEDAKAMLETTGADGVMIGRGALGNPWLF  248 (336)
T ss_pred             CCCHHHHHHHHHHHHCCCCCCEEC--CCCCCCHHHHHHHHHHCCCCEEEEECHHCCCCHHH
T ss_conf             760689999999971687533222--77424678999998637886898500222787589