HHsearch alignment for GI: 254780784 and conserved domain: TIGR01966
>TIGR01966 RNasePH ribonuclease PH; InterPro: IPR002381 Prokaryotic ribonuclease PH (2.7.7.56 from EC) (RNase PH) is a phosphorolytic exoribonuclease that removes nucleotide residues following the -CCA terminus of tRNA and adds nucleotides to the ends of RNA molecules by using nucleoside diphosphates as substrates . There is a similar protein in Caenorhabditis elegans that belongs to this group. More information about these proteins can be found at Protein of the Month: RNA Exosomes .; GO: 0000049 tRNA binding, 0004549 tRNA-specific ribonuclease activity, 0008033 tRNA processing.
Probab=99.97 E-value=4.5e-30 Score=263.32 Aligned_cols=220 Identities=28% Similarity=0.373 Sum_probs=205.7
Q ss_pred CCCCCCCCCEEEEEEEECCCCCCCCEEEEEECCCEEEEEEEECCCCCCCCCCCCCCCCEEEEEEEECCCCCCCCCCCCC-
Q ss_conf 6588677533787998447546670089998797689999816865212233445442035877405887544533455-
Q gi|254780784|r 313 RMDGRDSETVRDISAQVGLLQRTHGSSLFIRGDTQAIVVVTLGTREDEQYVDSLSGTQRNDFMMHYNFLPCATGEVSRM- 391 (699)
Q Consensus 313 R~DGR~~dEIRpIs~EvgvLPrvHGSALFtRGETQaL~tvTLG~~~d~Q~iD~l~~~~~k~fmlHYNFPpfsvGE~~~~- 391 (699)
T Consensus 1 R~dGR~~dqLRpv~i~r~f~~haEGSvLi~~G~TkVlCTASv~e~VP~flrG~G~GWiTAE----Y~MLPraT~~R~~RE 76 (237)
T TIGR01966 1 RPDGRKPDQLRPVKITRDFLKHAEGSVLIEFGDTKVLCTASVEEKVPPFLRGSGEGWITAE----YGMLPRATQTRNRRE 76 (237)
T ss_pred CCCCCCCCCCCCEEECCCCCCCCCCEEEEEECCEEEEEEEEECCCCCCCCCCCCCEEEEHH----HHHHHHHHCCCCHHH
T ss_conf 9898855345362554688788887268978792466678755872852358894255041----100033030312466
Q ss_pred ---CCCCCHHHHHHHHHHHHHHHCCCCCCCCCEEEEEEEEECCCCCCCHHHHHHHHHHHHHHC-----------C-CCCC
Q ss_conf ---676502467999999987410786446873899985311027852235667777987625-----------9-5022
Q gi|254780784|r 392 ---GAPSRREIGHGRLARRAIHPVLPQTAQFPYTLRIVSEITESDGSSSMATVCGSSLALMDA-----------G-VPIS 456 (699)
Q Consensus 392 ---~~~~RREiGHg~la~ral~~~~P~~~~~p~tirv~~evl~sngsssma~vc~~slal~da-----------g-vp~~ 456 (699)
T Consensus 77 a~~GK~~GRTqEIQRLIGRaLRavvDl~aLGErTI~iDCDVlQADGGTRTAsITGAfVAL~dAi~~L~~~~~~~~~~P~~ 156 (237)
T TIGR01966 77 AAKGKQSGRTQEIQRLIGRALRAVVDLEALGERTIWIDCDVLQADGGTRTASITGAFVALADAIKKLQKRGILKESEPIR 156 (237)
T ss_pred HHHCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCC
T ss_conf 86178787505677788889887734623485027985334338876124678889999999999998578623468711
Q ss_pred CCCCEEEEEEEEECCEEEEEEECCCCCCCCCCCCEEEEECCCC-CEEEECCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 5412133200440882899863144220136551001005565-124432453655688999999999999999999999
Q gi|254780784|r 457 KPVAGIAMGLVKDGDDFIILSDISGDEDHLGHMDFKVAGTDSG-ITAMQMDMKIGGISENIMVMALQQAKRGRLHILNEM 535 (699)
Q Consensus 457 ~~VaGiamGLi~~~~~~~iLtDI~G~ED~~GdMDFKvaGT~~G-iTa~QmDiK~~gi~~~il~~al~~A~~gr~~il~~m 535 (699)
T Consensus 157 ~~VAAVSVGiv---~g~~~L-DL~Y~EDs~A~vD~NvVmT~~G~fvEvQGTaE~~pFsr~EL~~LL~LA~~Gi~eL~~~Q 232 (237)
T TIGR01966 157 DFVAAVSVGIV---DGEPVL-DLDYEEDSAADVDMNVVMTGSGGFVEVQGTAEEEPFSRDELNELLDLAEKGIRELIELQ 232 (237)
T ss_pred CCCCEEEEEEE---CCEEEE-CCCCCCCCCCCCCCEEEECCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 05243898876---680676-35885556463352058857876588870578897018999999999888899999999
Q ss_pred HHCCC
Q ss_conf 84356
Q gi|254780784|r 536 SKVLS 540 (699)
Q Consensus 536 ~~~~~ 540 (699)
T Consensus 233 k~aL~ 237 (237)
T TIGR01966 233 KQALG 237 (237)
T ss_pred HHHCC
T ss_conf 99719