HHsearch alignment for GI: 254781020 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=99.39 E-value=7.5e-11 Score=82.27 Aligned_cols=206 Identities=16% Similarity=0.129 Sum_probs=122.0
Q ss_pred CEEEECHHHHHHHHCHHHHHHHHHHHHHHCCEEECCCCHHH-H-CCHHHHHHHHHHHHCCCHHHHHCCCCCCCCCCCCHH
Q ss_conf 86850126633430002569999999980990660520221-1-286688899999866401232202752123679989
Q gi|254781020|r 58 PLLISSMTGGNNKMIERINRNLAIAAEKTKVAMAVGSQRVM-F-SDHNAIKSFELRQYAPHTVLISNLGAVQLNYDFGVQ 135 (337)
Q Consensus 58 Pv~iapmsgg~~~~~~~~~~~lA~aa~~~g~~~~~g~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 135 (337)
T Consensus 1 k~~lAPM~g~td~-------~fR~l~~~~g~~~~~TEmv~a~~~~~~~~~~~~~~~~~~~e~p~~~Ql~g~~p~---~~~ 70 (231)
T cd02801 1 KLILAPMVGVTDL-------PFRLLCRRYGADLVYTEMISAKALLRGNRKRLRLLTRNPEERPLIVQLGGSDPE---TLA 70 (231)
T ss_pred CEEEECCCCCCCH-------HHHHHHHHHCCCEEEECCEEEHHHHCCCHHHHHHHCCCCCCCEEEEEECCCCHH---HHH
T ss_conf 9898378998479-------999999998939899798998776538887898724486678079987589899---999
Q ss_pred HHHHHHHHHCCCEEEECCCCHHHHHHHCCCC-----CHHHHHHHHHHHHHHCCCCEEEEE---CCCC-CCHHHHHHHHHC
Q ss_conf 9998776508985762532035665206885-----243079999999987399717850---4786-688999999976
Q gi|254781020|r 136 KAHQAVHVLGADGLFLHLNPLQEIIQPNGNT-----NFADLSSKIALLSSAMDVPLLLKE---VGCG-LSSMDIELGLKS 206 (337)
Q Consensus 136 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~i~~l~~~~~~pii~k~---v~~~-~~~~~~~~a~~a 206 (337)
T Consensus 71 ~aa~~~~~~g~d~IDlN~GCP~~~v~~~g~Ga~Ll~~p~~v~~iv~~~~~~~~ipVsvKiRlg~~~~~~~~~~~~~l~~~ 150 (231)
T cd02801 71 EAAKIVEELGADGIDLNMGCPSPKVTKGGAGAALLKDPELVAEIVRAVREAVPIPVTVKIRLGWDDEEETLELAKALEDA 150 (231)
T ss_pred HHHHHHHHCCCCEEEEECCCCHHHHCCCCCCHHHHHCHHHHHHHHHHHHHHCCCCEEEEEEECCCCHHHHHHHHHHHHHC
T ss_conf 99998875399999983899969970898307876297899999999997569947999970778634799999999976
Q ss_pred CCCEEEECCCCCCCCCCHHHHCCCCCCCCHHHHHCCCCHHHHHHHHHHHCCCCEEEECCCCCCHHHHHHHHHH-CCCEEH
Q ss_conf 9979994588886510012310234432324431063468899999852289879972988888999999983-888523
Q gi|254781020|r 207 GIRYFDIAGRGGTSWSRIESHRDLESDIGIVFQDWGIPTPLSLEMARPYCNEAQFIASGGLRNGVDILKSIIL-GASLGG 285 (337)
Q Consensus 207 Gad~i~v~~~gG~~~~~~~~~r~~~~~~~~~~~~~gi~~~~al~~~~~~~~~v~IiadGGIr~g~Dv~kAlal-GAdaV~ 285 (337)
T Consensus 151 G~~~ltvH~Rt~---------~q--~~~-------~~a~~e~i~~~~~-~~~ipvi~NGdI~s~~d~~~~~~~tg~dgvM 211 (231)
T cd02801 151 GASALTVHGRTR---------EQ--RYS-------GPADWDYIAEIKE-AVSIPVIANGDIFSLEDALRCLEQTGVDGVM 211 (231)
T ss_pred CCCEEEEECCCH---------HH--CCC-------CCCCHHHHHHHHH-CCCCEEEEECCCCCHHHHHHHHHHHCCCEEE
T ss_conf 998999835614---------41--467-------7622699999986-5997799838909999999999850999999
Q ss_pred HHHHHHH
Q ss_conf 3479999
Q gi|254781020|r 286 LASPFLK 292 (337)
Q Consensus 286 iGr~~l~ 292 (337)
T Consensus 212 igRgal~ 218 (231)
T cd02801 212 IGRGALG 218 (231)
T ss_pred ECHHHHH
T ss_conf 8788876