HHsearch alignment for GI: 254780818 and conserved domain: TIGR01298
>TIGR01298 RNaseT ribonuclease T; InterPro: IPR005987 Ribonuclease T (3.1.13 from EC) is an enzyme found so far only in gamma-subdivision proteobacteria such as Escherichia coli and Xylella fastidiosa. Ribonuclease T is homologous to the DNA polymerase III alpha chain. It can liberate AMP from the common C-C-A terminus of uncharged tRNA. It appears also to be involved in RNA maturation. It also acts as a 3' to 5' single-strand DNA-specific exonuclease; it is distinctive for its ability to remove residues near a double-stranded stem. Ribonuclease T is a high copy suppressor in E. coli of a UV-repair defect caused by deletion of three other single-stranded DNA exonucleases.; GO: 0004540 ribonuclease activity, 0006396 RNA processing.
Probab=99.91 E-value=2.1e-25 Score=178.74 Aligned_cols=170 Identities=28% Similarity=0.495 Sum_probs=138.6
Q ss_pred EEEECCCCCCCCCCCEEEEEEEEEEE--C-C-EECCCEEEEEECC-CCCCCCHHHEEECCCCCCC-CCCCCCCCHHHHHH
Q ss_conf 99984678888888889999999999--9-9-8803137989858-8822886572420210123-22485210023447
Q gi|254780818|r 10 IVFDIETTGLDSKNDRIIEIGAVELL--D-Y-SKTNRTFQVFLCP-NGRKNSPEALKLHGITDEF-LKDKPSFSSIFSEF 83 (245)
Q Consensus 10 iv~D~ETTGl~~~~d~Iieigav~i~--~-~-~~~~~~f~~~i~P-~~~~i~~~~~~ihGIt~~~-l~~~p~f~ev~~~f 83 (245)
T Consensus 11 VVvDVET~GfN~~~dALLEiAait~~MDe~G~L~P~~~~~~~~~P~~Gani~P~~L~~~GI~~d~P~R~A~~E~~Al~~i 90 (201)
T TIGR01298 11 VVVDVETAGFNAKTDALLEIAAITLKMDEQGYLVPDETLHFHVEPFEGANIEPEALEFTGIDLDHPLRGAVEEKLALEEI 90 (201)
T ss_pred EEEEECCCCCCCHHHHHHHHHHHHCCCCCCEEECCCCEEEEEEECCCCCCCCCCCEEECCCCCCCCCCHHHHHHHHHHHH
T ss_conf 48861067766013455555420001167300147852578852267998871200220654488752246688999999
Q ss_pred HHHH-------HCCCCEEEEECCCCCCCEEE-ECHHCCCCC--CCCCCHHCCCHHCCCCCCCCCCCCHHHHHHHHCCCCC
Q ss_conf 7753-------00232023102322431121-000001122--2210000110000000177642223789997187545
Q gi|254780818|r 84 WDFF-------NEQNAEWIAHNAKFDVGFIN-AELQRINKD--PLDPSRIIDTLSIARRKHPSSRNDLNSLCKRYGITIS 153 (245)
Q Consensus 84 ~~fi-------~~~~~~lVaHNa~FD~~fL~-~el~r~~~~--~~~~~~~iDTl~lar~~~p~~~~~L~~l~~~~~i~~~ 153 (245)
T Consensus 91 F~~vR~~~K~~gC~RailV~HNa~fD~~Fl~~AA~~R~~~KRnPFH~F~~FDTatLAGl~y-GQTV-L~kA~Q~Ag~~fd 168 (201)
T TIGR01298 91 FKVVRKALKASGCQRAILVAHNASFDLGFLNRAAVKRTALKRNPFHPFSVFDTATLAGLAY-GQTV-LAKACQAAGLDFD 168 (201)
T ss_pred HHHHHHHHHHCCCCEEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHH-HHHH-HHHHHHHCCCCCC
T ss_conf 9999999975579603676003204666899999998611578987652246899988864-1799-9988864278867
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHCCCCC
Q ss_conf 5566640269999999999997305766
Q gi|254780818|r 154 HRSKHGALLDSHLLSDVYIKMMVGGSQI 181 (245)
Q Consensus 154 ~r~~H~Al~Da~~~a~v~~~ll~g~~q~ 181 (245)
T Consensus 169 ~~~AHSA~YDtE~TA~LFC~ivN~wk~~ 196 (201)
T TIGR01298 169 AKQAHSALYDTEKTAELFCEIVNRWKEL 196 (201)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 5443101200356899999886304550