HHsearch alignment for GI: 254780277 and conserved domain: cd06143

>cd06143 PAN2_exo PAN2 is the catalytic subunit of poly(A) nuclease (PAN), a Pab1p-dependent 3'-5' exoribonuclease which plays an important role in the posttranscriptional maturation of pre-mRNAs. PAN catalyzes the deadenylation of poly(A) tails, which are initially synthesized to default lengths of 70 to 90, to mRNA-specific lengths of 55 to 71. Pab1p and PAN also play a role in the export and decay of mRNA. PAN2 contains a DEDDh-type DnaQ-like 3'-5' exonuclease domain with three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved 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.
Probab=97.13  E-value=0.002  Score=43.54  Aligned_cols=87  Identities=16%  Similarity=0.169  Sum_probs=60.1

Q ss_pred             HHHHHHHHHHHHCCCCCHHHHCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHCCCCCCCCHHHHHHHHCCCCCCCCCCCCC
Q ss_conf             89999744442022210011003212378898618866642100234554316876677246677622444223356543
Q gi|254780277|r  446 TKEILSYLKKFFENEHFLKIGHNIKYDKLVLHRYGISMRGFEDIMLMSYVLDSGRSSHDIASIAQKWLSYTRKEILKSRK  525 (976)
Q Consensus       446 ~~evl~~L~~lle~~~i~kIgHN~KfD~~~L~~~GI~l~~i~DTmlaayLLdp~~~~~~L~~la~~yL~~~~~e~~~~~k  525 (976)
T Consensus        88 ~~~~~~~l~~li~~~~-ILVGHsL~nDL~aL~l~-hP~~~i~DTs~l~~--~~~~r~~sLk~La~~~Lg~~IQ~g-----  158 (174)
T cd06143          88 LKSAYLKLRLLVDLGC-IFVGHGLAKDFRVINIQ-VPKEQVIDTVELFH--LPGQRKLSLRFLAWYLLGEKIQSE-----  158 (174)
T ss_pred             HHHHHHHHHHHCCCCC-EEECCCCHHHHHHHCCC-CCCCCEEECHHHCC--CCCCCCCCHHHHHHHHCCCCCCCC-----
T ss_conf             9999999998547996-89789636679885066-99866577788526--899887089999999808104698-----


Q ss_pred             CCCCCHHHCCHHHHHHHHHHHHHHHHHHH
Q ss_conf             22210000001233332221111124567
Q gi|254780277|r  526 SSIPIDKISDSQVQEHAIENSNVILQLWL  554 (976)
Q Consensus       526 ~~~~~~~i~~e~~~~Yaa~Da~~t~~L~~  554 (976)
T Consensus       159 -------------~HdSvEDArAam~LYr  174 (174)
T cd06143         159 -------------THDSIEDARTALKLYR  174 (174)
T ss_pred             -------------CCCCHHHHHHHHHHHC
T ss_conf             -------------9593999999999629