HHsearch alignment for GI: 254780276 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=95.82 E-value=0.15 Score=31.96 Aligned_cols=186 Identities=11% Similarity=0.123 Sum_probs=101.6
Q ss_pred HHHHHHHHHHHHCCCCEEEECCCCCCHHCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCC
Q ss_conf 99999999999769989998672325010899999998654311012344300367410278999975343210244320
Q gi|254780276|r 22 DAFVEHIEWQITEGSGGLVPAGTTGESSTLSHEEHCRIIELCVKTVASRVPVMAGIGSNNTRESVELAQYAHSIGADALL 101 (292)
Q Consensus 22 ~~~~~~i~~l~~~gv~gi~~~G~tGE~~~Ls~~Er~~~~~~~~~~~~~r~pii~gv~~~~~~~~i~~a~~a~~~Gad~i~ 101 (292)
T Consensus 13 ~~fR~l~~~~---g~~~~~TEmv~a~~~~~~~~~~----~~~~~~~~~e~p~~~Ql~g~~p~~~~~aa~~~~~~g~d~ID 85 (231)
T cd02801 13 LPFRLLCRRY---GADLVYTEMISAKALLRGNRKR----LRLLTRNPEERPLIVQLGGSDPETLAEAAKIVEELGADGID 85 (231)
T ss_pred HHHHHHHHHH---CCCEEEECCEEEHHHHCCCHHH----HHHHCCCCCCCEEEEEECCCCHHHHHHHHHHHHHCCCCEEE
T ss_conf 9999999998---9398997989987765388878----98724486678079987589899999999988753999999
Q ss_pred E--ECCCC----------CCCCHHHHHHHHHHHHHHHCCCCEEEECHHHCCCCCC---HHHHHHHHHHCCHHHHHH----
Q ss_conf 0--12343----------3431788999999987530233012100111112111---068999743203023310----
Q gi|254780276|r 102 V--VIPYY----------NKPNRRGLLAHFGEIATTVSSPIYIYNNPSRTVIEMD---VDTMAELAATYPNIVGVK---- 162 (292)
Q Consensus 102 v--~~P~~----------~~~~~~~i~~~~~~i~~~~~~pi~iYn~P~~~g~~~~---~~~l~~L~~~~pni~giK---- 162 (292)
T Consensus 86 lN~GCP~~~v~~~g~Ga~Ll~~p~~v~~iv~~~~~~~~ipVsvK---iRlg~~~~~~~~~~~-~~l~~~G-~~~ltvH~R 160 (231)
T cd02801 86 LNMGCPSPKVTKGGAGAALLKDPELVAEIVRAVREAVPIPVTVK---IRLGWDDEEETLELA-KALEDAG-ASALTVHGR 160 (231)
T ss_pred EECCCCHHHHCCCCCCHHHHHCHHHHHHHHHHHHHHCCCCEEEE---EEECCCCHHHHHHHH-HHHHHCC-CCEEEEECC
T ss_conf 83899969970898307876297899999999997569947999---970778634799999-9999769-989998356
Q ss_pred ------CCCCCHHHHHHHHHHCCCCEEECCCCCC---CHHHHHH-HCCCCCCCCCCCC-CCCHHHHHHH
Q ss_conf ------0122113589999735984032013221---0012432-0334455222232-1100244444
Q gi|254780276|r 163 ------DATGKIELVSEQRLSCGFDFIQLSGEDS---SALGFNA-HGGVGCISVTANV-VPRICAEFQQ 220 (292)
Q Consensus 163 ------~~~~~~~~~~~~~~~~~~~~~v~~G~~~---~~~~~~~-~G~~G~is~~~n~-~P~~~~~l~~ 220 (292)
T Consensus 161 t~~q~~~~~a~~e~i~~~~~~~~ip-vi~NGdI~s~~d~~~~~~~tg~dgvMigRgal~nP~iF~~i~~ 228 (231)
T cd02801 161 TREQRYSGPADWDYIAEIKEAVSIP-VIANGDIFSLEDALRCLEQTGVDGVMIGRGALGNPWLFREIKE 228 (231)
T ss_pred CHHHCCCCCCCHHHHHHHHHCCCCE-EEEECCCCCHHHHHHHHHHHCCCEEEECHHHHHCCHHHHHHHH
T ss_conf 1441467762269999998659977-9983890999999999985099999987888769889999999