HHsearch alignment for GI: 254780669 and conserved domain: cd02801

>cd02801 DUS_like_FMN Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze 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. It is likely that different family members have different substrate specificities, which may overlap. 1VHN, a putative flavin oxidoreductase, has high sequence similarity to DUS. The enzymatic mechanism of 1VHN is not known at the present.
Probab=92.53  E-value=1  Score=25.63  Aligned_cols=107  Identities=18%  Similarity=0.229  Sum_probs=67.7

Q ss_pred             ECHHHCCCHHHHHHHHH-----CCCEEEEECCCCC-CHHHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHCCCCCCCHHH
Q ss_conf             22576289999999850-----5977998367778-99999999999972587808995146544401000000010688
Q gi|254780669|r  140 IPALLCRQTDLLTAAAQ-----TGRVINVKKGQFL-SPWEMHNILQKLHAHGAKDVLFCERGTSFGYNTLVTDMRSIPIM  213 (301)
Q Consensus       140 IgA~~~rqtdLl~a~a~-----t~kpV~iKkgq~~-s~~e~~~a~eki~~~Gn~~i~lcERG~~fgy~~lvvD~~~i~~l  213 (301)
T Consensus       100 ~Ga~Ll~~p~~v~~iv~~~~~~~~ipVsvKiRlg~~~~~~~~~~~~~l~~~G~~~ltvH~Rt~~q~~~~-~a~~e~i~~~  178 (231)
T cd02801         100 AGAALLKDPELVAEIVRAVREAVPIPVTVKIRLGWDDEEETLELAKALEDAGASALTVHGRTREQRYSG-PADWDYIAEI  178 (231)
T ss_pred             CCHHHHHCHHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHHHCCCCEEEEECCCHHHCCCC-CCCHHHHHHH
T ss_conf             307876297899999999997569947999970778634799999999976998999835614414677-6226999999


Q ss_pred             HH-HCCCEEECHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCEEEEE
Q ss_conf             85-187168711777421223453212638899999999997189889998
Q gi|254780669|r  214 TS-MGVPVIFDASHSVQQPGIHGNCSGGERQYIVPLAKAAVAIGIAGIFLE  263 (301)
Q Consensus       214 k~-~~~PVi~D~SHs~q~p~~~~~~~gG~r~~v~~la~aa~a~G~dGlfiE  263 (301)
T Consensus       179 ~~~~~ipvi~NG-----------dI~-s~~d~~~~~~~----tg~dgvMig  213 (231)
T cd02801         179 KEAVSIPVIANG-----------DIF-SLEDALRCLEQ----TGVDGVMIG  213 (231)
T ss_pred             HHCCCCEEEEEC-----------CCC-CHHHHHHHHHH----HCCCEEEEC
T ss_conf             865997799838-----------909-99999999985----099999987