HHsearch alignment for GI: 254780434 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=99.65 E-value=1.5e-14 Score=117.90 Aligned_cols=176 Identities=22% Similarity=0.257 Sum_probs=126.7
Q ss_pred HHHHHHHHHCCCCCCEEECCCCCHHHHHHHHHHHHHHCC-CCCEEEEECCCCCC------CCCCCCCCHHHHHHHHHHHH
Q ss_conf 998764100012100011045424678877655542067-55269830333653------22110000234321111224
Q gi|254780434|r 124 FSRLSKIQPTSPIGINLGANKDSKDFILDYVSGIRLFFT-IASYFTINISSPNT------PGLRSLQKKKNLERLLIHVM 196 (362)
Q Consensus 124 ~~~l~~~~~~~pi~vsI~~~~~s~~~~~dy~~~~~~~~~-~aD~iEiNiSCPNt------~g~~~~~~~~~l~~~l~~v~ 196 (362)
T Consensus 45 ~~~~~~~~~e~p~~~Ql~g~~-----p~~~~~aa~~~~~~g~d~IDlN~GCP~~~v~~~g~Ga~Ll~~p~~v~~iv~~~~ 119 (231)
T cd02801 45 LRLLTRNPEERPLIVQLGGSD-----PETLAEAAKIVEELGADGIDLNMGCPSPKVTKGGAGAALLKDPELVAEIVRAVR 119 (231)
T ss_pred HHHHCCCCCCCEEEEEECCCC-----HHHHHHHHHHHHHCCCCEEEEECCCCHHHHCCCCCCHHHHHCHHHHHHHHHHHH
T ss_conf 987244866780799875898-----999999999887539999998389996997089830787629789999999999
Q ss_pred HHHHHHHHHCCCCCEEEEECC--CCCCHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCHHHH
Q ss_conf 445565531268851786505--777748889999987644982999806655532345775446322113564542468
Q gi|254780434|r 197 QTREEEKIKTGKFVPIFLKIS--PDLSEEELDDIAVEVLSHKVEGIIVSNTTLSRKGVQCSDNHEQDGGLSGSPLFLKST 274 (362)
Q Consensus 197 ~~~~~~~~~~~~~~Pi~vKLs--Pd~~~~~i~~ia~~a~~~g~dGiv~~NT~~~~~~~~~~~~~~~~GGlSG~~i~~~al 274 (362)
T Consensus 120 ~~---------~~ipVsvKiRlg~~~-~~~~~~~~~~l~~~G~~~ltvH~----Rt~~q---------~~~~~a----~~ 172 (231)
T cd02801 120 EA---------VPIPVTVKIRLGWDD-EEETLELAKALEDAGASALTVHG----RTREQ---------RYSGPA----DW 172 (231)
T ss_pred HH---------CCCCEEEEEEECCCC-HHHHHHHHHHHHHCCCCEEEEEC----CCHHH---------CCCCCC----CH
T ss_conf 75---------699479999707786-34799999999976998999835----61441---------467762----26
Q ss_pred HHHHHHHHHCCCCEEEEEECCCCCHHHHHHHHHC-CCCEEEECHHHHCCCHHHHHHHHHHH
Q ss_conf 9999999740897489996788999999999983-99975452787706978999999999
Q gi|254780434|r 275 IALAKIRQRVGPKIAIIGTGGISSTKDALDKIMA-GANLIQLYSAMIYEGISLPKRIIQGL 334 (362)
Q Consensus 275 ~~i~~i~~~~~~~i~IIg~GGI~s~~Da~e~l~a-GAs~VQi~Tali~~Gp~~~~~I~~~L 334 (362)
T Consensus 173 e~i~~~~~~~--~ipvi~NGdI~s~~d~~~~~~~tg~dgvMigRgal~n-P~iF~~i~~~~ 230 (231)
T cd02801 173 DYIAEIKEAV--SIPVIANGDIFSLEDALRCLEQTGVDGVMIGRGALGN-PWLFREIKELL 230 (231)
T ss_pred HHHHHHHHCC--CCEEEEECCCCCHHHHHHHHHHHCCCEEEECHHHHHC-CHHHHHHHHHH
T ss_conf 9999998659--9779983890999999999985099999987888769-88999999975