HHsearch alignment for GI: 254780277 and conserved domain: pfam04857
>pfam04857 CAF1 CAF1 family ribonuclease. The major pathways of mRNA turnover in eukaryotes initiate with shortening of the polyA tail. CAF1 encodes a critical component of the major cytoplasmic deadenylase in yeast. Both Caf1p is required for normal mRNA deadenylation in vivo and localizes to the cytoplasm. Caf1p copurifies with a Ccr4p-dependent polyA-specific exonuclease activity. Some members of this family include and inserted RNA binding domain pfam01424. This family of proteins is related to other exonucleases pfam00929 (Bateman A pers. obs.). The crystal structure of Saccharomyces cerevisiae Pop2 has been resolved at 2.3 Angstrom#resolution.
Probab=93.74 E-value=0.28 Score=27.95 Aligned_cols=52 Identities=13% Similarity=0.022 Sum_probs=24.6
Q ss_pred CCCHHHHCCCCHHHHHHHHC--CCCC---------------CCCCCHHHHHHHHCCC--CCCCCHHHHHHH
Q ss_conf 21001100321237889861--8866---------------6421002345543168--766772466776
Q gi|254780277|r 460 EHFLKIGHNIKYDKLVLHRY--GISM---------------RGFEDIMLMSYVLDSG--RSSHDIASIAQK 511 (976)
Q Consensus 460 ~~i~kIgHN~KfD~~~L~~~--GI~l---------------~~i~DTmlaayLLdp~--~~~~~L~~la~~ 511 (976)
T Consensus 139 ~~~~wv~f~g~yD~~yl~k~l~g~~LP~~~~eF~~~l~~~FP~vyD~K~la~~~~~~~~~~~~gL~~lA~~ 209 (235)
T pfam04857 139 SSVTWVTFHGLYDFGYLLKLLTGGPLPETLDDFLELLRELFPRVYDTKYLAKFCFELDGGSNGGLQELADL 209 (235)
T ss_pred CCCEEEEECCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHH
T ss_conf 99879981727789999999749989998999999999977717509999985221358755789999997