HHsearch alignment for GI: 254780438 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=90.58 E-value=1.3 Score=25.70 Aligned_cols=197 Identities=12% Similarity=0.130 Sum_probs=104.3
Q ss_pred HHHHHHHHCCCCEEEEECCCCCCCCC--HHHHHHHHHHHCCCCCCCEE--EEEECCCHHHHHHHHHHCCCEEEEE-----
Q ss_conf 99999997499899982478833488--89999988740001367415--8883485689999985072128971-----
Q gi|254780438|r 28 HIGKIALQSGASGLTVHPRPDQRHIR--YTDLPEIRRLIDEQFPKAEL--NIEGYPNETFLNLCERYKPEQITLV----- 98 (261)
Q Consensus 28 ~~a~~~~~~GadgITvH~R~DrRHI~--~~Dv~~l~~~~~~~~~~~el--NiEg~p~~e~i~ia~~ikP~qvtLV----- 98 (261)
T Consensus 14 ~fR~l~~~~g~~-~~~TEmv~a~~~~~~~~~~~~~~~~~~---~e~p~~~Ql~g~~p~~~~~aa~~~~~~g~d~IDlN~G 89 (231)
T cd02801 14 PFRLLCRRYGAD-LVYTEMISAKALLRGNRKRLRLLTRNP---EERPLIVQLGGSDPETLAEAAKIVEELGADGIDLNMG 89 (231)
T ss_pred HHHHHHHHHCCC-EEEECCEEEHHHHCCCHHHHHHHCCCC---CCCEEEEEECCCCHHHHHHHHHHHHHCCCCEEEEECC
T ss_conf 999999998939-899798998776538887898724486---6780799875898999999999887539999998389
Q ss_pred -ECCCCCCCCCCCCCHHHHHHHHHHHHHHHCCC-CCEEEEEE----CCC-CCCHHHHHHHHCCCCEEEECCCCCHHHHHH
Q ss_conf -01655533357822133378899999862026-96389972----544-441479999740661465112111024443
Q gi|254780438|r 99 -PDDPHQLTSDHGWDFLQNQALLTKTVARLHNL-GSRISLFA----DGN-GNEHSLQAAKLTGADCIELYTGPYGACYNN 171 (261)
Q Consensus 99 -Pe~r~elTTegGldv~~~~~~L~~~i~~l~~~-girvSLFI----Dpd-~~q~~i~~a~~~Gad~VElhTG~Ya~a~~~ 171 (261)
T Consensus 90 CP~~~-v~~~g~Ga~Ll~~p~~v~~iv~~~~~~~~ipVsvKiRlg~~~~~~~~~~~~~l~~~G~~~ltvH~Rt~~q~~~~ 168 (231)
T cd02801 90 CPSPK-VTKGGAGAALLKDPELVAEIVRAVREAVPIPVTVKIRLGWDDEEETLELAKALEDAGASALTVHGRTREQRYSG 168 (231)
T ss_pred CCHHH-HCCCCCCHHHHHCHHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHHHCCCCEEEEECCCHHHCCCC
T ss_conf 99699-70898307876297899999999997569947999970778634799999999976998999835614414677
Q ss_pred HHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCHHHHHHHHHHCCCCEEEEEHHHHHHH-HHHHHHH
Q ss_conf 5643366688999876654156235207898987799999736996388425999999-9994099
Q gi|254780438|r 172 PQQERIFLNKLAITAQLAQKMDLQINAGHDLTIQNIPNLINAIPYISEISVGHAFAAT-ALECGVK 236 (261)
Q Consensus 172 ~~~~~~el~~i~~aa~~A~~lgL~VnAGHgLn~~Nl~~~i~~Ip~I~EvsIGHaiIse-Al~~GL~ 236 (261)
T Consensus 169 ~a~----~e~i~~~~~-~~~ipvi~NGd-I~s~~d~~~~~~-~tg~dgvMigRgal~nP~iF~~i~ 227 (231)
T cd02801 169 PAD----WDYIAEIKE-AVSIPVIANGD-IFSLEDALRCLE-QTGVDGVMIGRGALGNPWLFREIK 227 (231)
T ss_pred CCC----HHHHHHHHH-CCCCEEEEECC-CCCHHHHHHHHH-HHCCCEEEECHHHHHCCHHHHHHH
T ss_conf 622----699999986-59977998389-099999999998-509999998788876988999999