HHsearch alignment for GI: 254780456 and conserved domain: cd04453
>cd04453 S1_RNase_E S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and the maturation of tRNA, 10Sa RNA and the M1 precursor of RNase P. RNase E associates with PNPase (3' to 5' exonuclease), Rhl B (DEAD-box RNA helicase) and enolase (glycolytic enzyme) to form the RNA degradosome. RNase E tends to cut mRNA within single-stranded regions that are rich in A/U nucleotides. The N-terminal region of RNase E contains the catalytic site. Within the conserved N-terminal domain of RNAse E and RNase G, there is an S1-like subdomain, which is an ancient single-stranded RNA-binding domain. S1 domain is an RNA-binding module originally identified in the ribosomal protein S1. The S1 domain is required for RNA cleavage by RNase E. RNase G is paralogous to RNase E with an N-terminal catalytic domain th
Probab=98.04 E-value=1.9e-05 Score=50.31 Aligned_cols=72 Identities=25% Similarity=0.311 Sum_probs=45.1
Q ss_pred CCCCCEEEEEEEEECCC--EEEEEECCCCEEEEECCCCCCCC--CCCCCCCEECCCCEEEEEEEEEECCCCEEEEE
Q ss_conf 04896658999981596--69998514200000011110111--35574210037845799999862155047875
Q gi|254780456|r 280 YVEGSKVSGVVTNLTDY--GVFVELQSGIEGLAHISQISWTK--KNIHPSKILSVGQQVEVVILEVNPARKRISLG 351 (576)
Q Consensus 280 ~~~G~~v~g~V~~v~~~--G~~V~l~~~v~G~i~~sels~~~--~~~~~~~~~~~G~~v~~~Vl~id~~~~~i~lS 351 (576)
T Consensus 5 ~~vGnIY~GkV~~v~p~i~AAFVdiG~~k~gfL~~~d~~~~~~~~~~~~~~~l~~G~~ilVQV~Ke~~~~Kgp~lT 80 (88)
T cd04453 5 PIVGNIYLGRVKKIVPGLQAAFVDIGLGKNGFLHLSDILPAYFKKHKKIAKLLKEGQEILVQVVKEPIGTKGPRLT 80 (88)
T ss_pred CCCCCEEEEEEEEECCCCCEEEEECCCCCCEEEECHHCCHHHHCCCCCHHHHCCCCCEEEEEEEECCCCCCCCEEE
T ss_conf 6112489999988666874899965898689999034572351357887783779999999997668799786088