HHsearch alignment for GI: 254781115 and conserved domain: TIGR01942
>TIGR01942 pcnB poly(A) polymerase; InterPro: IPR010206 This entry describes the pcnB family of poly(A) polymerases (also known as plasmid copy number protein). These enzymes sequentially add adenosine nucleotides to the 3' end of RNAs, targeting them for degradation by the cell , . This was originally described for anti-sense RNAs, but was later demonstrated for mRNAs as well . Members of this family are as yet limited to the gamma- and beta-proteobacteria, with putative members in the Chlamydiacae and spirochetes. This family has homology to tRNA nucleotidyltransferase.; GO: 0003723 RNA binding, 0004652 polynucleotide adenylyltransferase activity, 0006378 mRNA polyadenylation.
Probab=100.00 E-value=0 Score=463.13 Aligned_cols=224 Identities=31% Similarity=0.531 Sum_probs=206.2
Q ss_pred CCHHHHHHHHHHHHCCCEEEEEHHHHHHHHCCCCCCEEEEEEECCHHHHHHHHHHCCCCEECCCCCCCEEEEEECCEEEE
Q ss_conf 99889999999997898599970699888778898608999808989999999876995621343144699998998886
Q gi|254781115|r 11 HDSDLINILSLLNKGEDKSCIVGGAVRDSLMNLSVQDIDIATTILPDRVMRIFSKTRYKVIPTSISYGTIKIICRKKYFD 90 (416)
Q Consensus 11 ~~~~~~~i~~~l~~~g~~~~~VGG~VRD~ll~~~~~DiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~gt~~~~~~~~~~d 90 (416)
T Consensus 14 ~S~~A~~Vv~rL~~AGyqAY~VGG~vRDLlLG~ePKDFDv~T~A~PE~v~~LFRN~R--i--vGRRFrlvHv~fG~~iIE 89 (448)
T TIGR01942 14 FSAHALNVVRRLKKAGYQAYIVGGAVRDLLLGIEPKDFDVATSATPEEVKKLFRNSR--I--VGRRFRLVHVSFGRQIIE 89 (448)
T ss_pred HHHHHHHHHHHHHHCCEEEEEECCHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHCCE--E--ECCCEEEEEEECCCCEEE
T ss_conf 649999999987007823767231587765479886442127896278998552055--6--404306888815880577
Q ss_pred EECCCC---CCC-------C---CCCCC-CCCCCHHHHHHCCCCCCCCCCEEECCC-CHHHHHCCCHHHHHHHHHHHCCC
Q ss_conf 421344---667-------6---88743-223320133210447800300200032-10132000068887877764276
Q gi|254781115|r 91 ITTLRS---DLI-------T---DGRYA-KVVFTRDWKADSLRRDFTINALYADQQ-GKVIDYVGGLNDLRNRTIKFIGD 155 (416)
Q Consensus 91 i~~~R~---e~~-------~---~~~~~-~~~~~~~~~eDl~RRDFTINAla~~~~-~~l~Dp~gG~~DL~~~~ir~v~~ 155 (416)
T Consensus 90 VaTFR~HHgE~~~Gda~~~~~na~Gri~~DN~YG~-~EEDA~RRDFT~NALYYDP~~e~I~Dy~gG~~Dlk~R~LR~IGD 168 (448)
T TIGR01942 90 VATFRSHHGEDDEGDAKKSSANAEGRILKDNVYGS-LEEDALRRDFTVNALYYDPSKEVILDYVGGVEDLKARRLRLIGD 168 (448)
T ss_pred EECCCCCCCCCCCCCCHHCCCCCCCCEECCCCCCC-CCCCCCCCCCEECCEECCCCCCEEECCCCCHHHHHCCCCEECCC
T ss_conf 51225546888654210002288632333775301-01033335520421000753256750357678661781010178
Q ss_pred CCCHHHCCCCCEEEEEEEEECCCCCCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCC
Q ss_conf 43100104210033201220136433111100012333321022205776887886421101899999875300233468
Q gi|254781115|r 156 AHHRILEDYLRILRFFRFFAHYGEKNIDSDGLVASIKAKKGLKILSSERIWSEINKLLEAKNPLNAIVHMYNGGIFKEIF 235 (416)
Q Consensus 156 ~~~rf~EDpLRiLRa~RFasrlg~f~id~~t~~ai~~~~~~L~~iS~ERI~~El~KiL~~~~~~~~l~~L~~~gll~~if 235 (416)
T Consensus 169 p~~Ry~EDPVRmLRA~r~~~kl~-f~i~~~t~~pI~~s~~~L~~~p~aRlfeE~~KllfSG~~~~~f~~l~~~~l~~~Lf 247 (448)
T TIGR01942 169 PEERYQEDPVRMLRALRFSSKLE-FTIDEKTAEPIRESAPLLKKIPPARLFEEILKLLFSGKSAILFKMLSEYKLLEPLF 247 (448)
T ss_pred HHHHCCCCCHHHHHHHHHHHHHC-CCCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHH
T ss_conf 36531568578999999987722-67898999999998786227897714788999860424899999860565214643
Q ss_pred CCCCC
Q ss_conf 87010
Q gi|254781115|r 236 LDVQE 240 (416)
Q Consensus 236 pel~~ 240 (416)
T Consensus 248 P~~~~ 252 (448)
T TIGR01942 248 PSVAK 252 (448)
T ss_pred HHHHH
T ss_conf 89999