HHsearch alignment for GI: 254780277 and conserved domain: cd06142
>cd06142 RNaseD_exo Ribonuclease (RNase) D is a bacterial enzyme involved in the maturation of small stable RNAs and the 3' maturation of tRNA. It contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain possessing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. In vivo, RNase D only becomes essential upon removal of other ribonucleases. Eukaryotic RNase D homologs include yeast Rrp6p, human PM/Scl-100 and the Drosophila melanogaster egalitarian protein.
Probab=99.87 E-value=3.5e-22 Score=180.37 Aligned_cols=171 Identities=21% Similarity=0.199 Sum_probs=140.4
Q ss_pred HHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCEECCCCCCCCCCCCCCCCCHHHHHHHHHH
Q ss_conf 99999999986685232332224331100124420102577665443455023137443334565001788999974444
Q gi|254780277|r 376 DIQQWVQKLETIGSASFKIITDTMDAFHSKPIAIAISTLDQKDDTSFKVETIFIDLSVHTSQDSTGKNTLTKEILSYLKK 455 (976)
Q Consensus 376 ~L~~li~~L~~~~~ia~DtETt~ld~~~~~ivGisls~~~~~~~~~~~~~~~yip~~~~~~~d~~~~~~~~~evl~~L~~ 455 (976)
T Consensus 1 ~l~~~~~~l~~~~~i~~DtE~~~~~~~~~~l~LiQia~~~~---------~ylid~~~~-------------~~~~~L~~ 58 (178)
T cd06142 1 ELADLCERLAGAGVIAVDTEFMRLRTYYPRLCLIQISTGGQ---------AYLIDPLAI-------------GDLSPLKE 58 (178)
T ss_pred CHHHHHHHHCCCCEEEEECCCCCCCCCCCEEEEEEEEECCC---------EEEEECCCC-------------CCHHHHHH
T ss_conf 98999999707994899898678855887289999986890---------699953123-------------44699999
Q ss_pred HHCCCCCHHHHCCCCHHHHHHHHC-CCCCCCCCCHHHHHHHHCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCHHHC
Q ss_conf 202221001100321237889861-8866642100234554316876677246677622444223356543222100000
Q gi|254780277|r 456 FFENEHFLKIGHNIKYDKLVLHRY-GISMRGFEDIMLMSYVLDSGRSSHDIASIAQKWLSYTRKEILKSRKSSIPIDKIS 534 (976)
Q Consensus 456 lle~~~i~kIgHN~KfD~~~L~~~-GI~l~~i~DTmlaayLLdp~~~~~~L~~la~~yL~~~~~e~~~~~k~~~~~~~i~ 534 (976)
T Consensus 59 lL~d~~i~KVgh~~~~Dl~~L~~~~~~~~~~v~Dt~ia~~~l~~~-~~~~L~~L~~~~lg~~l~----K~~q~s~W~~rP 133 (178)
T cd06142 59 LLADPNIVKVFHAAREDLELLKRDFGILPVNLFDTQIAARLLGLG-DSVGLAALVEELLGVELD----KGEQRSDWLKRP 133 (178)
T ss_pred HHCCCCCEEEEEEHHHHHHHHHHHHCCCCCCEEEHHHHHHHCCCC-CCHHHHHHHHHHHCCCCC----CCCCCCCCCCCC
T ss_conf 975999439996279999999997396765453089999982886-737899999999298777----773646643367
Q ss_pred C-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf 0-123333222111112456776322210001345788607
Q gi|254780277|r 535 D-SQVQEHAIENSNVILQLWLLLRPKLIVEKLLHVYERLDK 574 (976)
Q Consensus 535 ~-e~~~~Yaa~Da~~t~~L~~~l~~~L~~~~l~~l~~~iE~ 574 (976)
T Consensus 134 Ls~~qi~YAa~Da~~l~~l~~~l~~~L~~~~~~~~~~-~e~ 173 (178)
T cd06142 134 LTDEQLEYAANDVRYLLPLYEKLKEELEEEGRLEWAE-EEC 173 (178)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHH-HHH
T ss_conf 8289999999979999999999999999868399999-999