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