HHsearch alignment for GI: 254780751 and conserved domain: cd04471
>cd04471 S1_RNase_R S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important role in the degradation of RNA with extensive secondary structure, such as rRNA, tRNA, and certain mRNA which contains repetitive extragenic palindromic sequences. The C-terminal S1 domain binds ssRNA.
Probab=96.71 E-value=0.0032 Score=41.48 Aligned_cols=40 Identities=20% Similarity=0.371 Sum_probs=35.7
Q ss_pred CCCEEEEEEEEECCCCCEEEEEEC-CCCCCCCCHHHCCCCCCC
Q ss_conf 287879899783638823135327-897713022213712102
Q gi|254780751|r 39 KGNIYLAKVTRVEPSLQAAFVDYG-GNRHGFLPFLEIHPDYYQ 80 (723)
Q Consensus 39 ~GnIY~G~V~~V~p~lqAAFVdiG-~~k~gFL~~~ei~~~y~~ 80 (723)
T Consensus 1 IG~~f~g~I~~v~~~--GiFV~l~~~~ieGli~~~~l~~d~y~ 41 (83)
T cd04471 1 VGEEFDGVISGVTSF--GLFVELDNLTVEGLVHVSTLGDDYYE 41 (83)
T ss_pred CCCEEEEEEEEEEEE--EEEEEEECCCEEEEEECCCCCCCCEE
T ss_conf 999999999989830--69999828873999982214567224