HHsearch alignment for GI: 254780975 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=95.68 E-value=0.2 Score=29.47 Aligned_cols=175 Identities=15% Similarity=0.133 Sum_probs=99.1
Q ss_pred HHHCCCCEEEEEEECCEECCCCCCCH-HHHHHHHH-CCCCEEEEEEEEEECCHHH---HHHCCCCCCEEEEECCC-----
Q ss_conf 99659989999734263458434178-99998641-2564168567885120336---76404776079997066-----
Q gi|254780975|r 26 ITKAGAKQIHFDVMDGCFVPNISFGA-DVIRSLRS-YSDSVFDCHLMISSIDSHI---NIIADAGCDIITFHPES----- 95 (224)
Q Consensus 26 l~~~~~d~iHiDImDg~fvpn~~~~~-~~i~~i~~-~t~~~~dvHLMv~~P~~~i---~~~~~~g~d~i~~H~E~----- 95 (224)
T Consensus 19 ~~~~g~~~~~T---Emv~a~~~~~~~~~~~~~~~~~~~e~p~~~Ql~g~~p~~~~~aa~~~~~~g~d~IDlN~GCP~~~v 95 (231)
T cd02801 19 CRRYGADLVYT---EMISAKALLRGNRKRLRLLTRNPEERPLIVQLGGSDPETLAEAAKIVEELGADGIDLNMGCPSPKV 95 (231)
T ss_pred HHHHCCCEEEE---CCEEEHHHHCCCHHHHHHHCCCCCCCEEEEEECCCCHHHHHHHHHHHHHCCCCEEEEECCCCHHHH
T ss_conf 99989398997---989987765388878987244866780799875898999999999887539999998389996997
Q ss_pred ---------CCC---HHHHHHHHHHC-CCEEEEEEECCC----CHHHHHHHHHHCCEEEEEEEECCCCCCCCCC-HHHHH
Q ss_conf ---------421---58999867764-982599852333----4478998862014028998306776533220-13577
Q gi|254780975|r 96 ---------SPH---IRRSLRTIHAM-GKKTGVAINPET----PVAILEDVIDEIDMILIMTVNPGFGGQQLIE-STIPK 157 (224)
Q Consensus 96 ---------~~~---~~~~i~~i~~~-g~k~Giai~p~T----~~~~i~~~l~~~D~vliM~V~PG~~Gq~f~~-~~l~k 157 (224)
T Consensus 96 ~~~g~Ga~Ll~~p~~v~~iv~~~~~~~~ipVsvKiRlg~~~~~~~~~~~~~l~~~-G~~~ltvH~Rt~~q~~~~~a~~e~ 174 (231)
T cd02801 96 TKGGAGAALLKDPELVAEIVRAVREAVPIPVTVKIRLGWDDEEETLELAKALEDA-GASALTVHGRTREQRYSGPADWDY 174 (231)
T ss_pred CCCCCCHHHHHCHHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHHHC-CCCEEEEECCCHHHCCCCCCCHHH
T ss_conf 0898307876297899999999997569947999970778634799999999976-998999835614414677622699
Q ss_pred HHHHHHHHHCCCCEEEEECCCC-HHHHHHHHH-CCCCEEEECHHHHCCCCHH
Q ss_conf 8998654313865269815899-889999996-7998999742663789989
Q gi|254780975|r 158 IRQAKALIGKRSISLEVDGGVT-SRNIKSLVQ-AGADLLVVGSSFFNQKGEI 207 (224)
Q Consensus 158 I~~l~~~~~~~~~~I~vDGGvn-~~~i~~l~~-~Gad~~V~Gsaif~~~d~~ 207 (224)
T Consensus 175 i~~~~~---~~~ipvi~NGdI~s~~d~~~~~~~tg~dgvMigRgal~nP~iF 223 (231)
T cd02801 175 IAEIKE---AVSIPVIANGDIFSLEDALRCLEQTGVDGVMIGRGALGNPWLF 223 (231)
T ss_pred HHHHHH---CCCCEEEEECCCCCHHHHHHHHHHHCCCEEEECHHHHHCCHHH
T ss_conf 999986---5997799838909999999999850999999878887698899