HHsearch alignment for GI: 254780788 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=96.05 E-value=0.03 Score=35.83 Aligned_cols=66 Identities=23% Similarity=0.443 Sum_probs=52.0
Q ss_pred HHHCCCEEEEEEEECCCC--EEEEEEC-CCEEEEEHHHCC---------CCCCCCCCCEEEEEEEEECCCCCEEEEEE
Q ss_conf 852083899999840576--3899957-935874478748---------87511527669999976113587028987
Q gi|254780788|r 135 KDKVGEIISGTVKRVEYG--NVIVDLG-NSDGVIRRDETI---------SRENLRPGDRVKSYIYDVRREQRGPQVLL 200 (526)
Q Consensus 135 ~~r~Geiv~G~V~r~e~~--~iiVdlg-~~ea~Lp~~e~i---------p~E~~~~Gdrika~i~~V~~~~rgpqi~l 200 (526)
T Consensus 4 ~~~vGnIY~GkV~~v~p~i~AAFVdiG~~k~gfL~~~d~~~~~~~~~~~~~~~l~~G~~ilVQV~Ke~~~~Kgp~lT~ 81 (88)
T cd04453 4 EPIVGNIYLGRVKKIVPGLQAAFVDIGLGKNGFLHLSDILPAYFKKHKKIAKLLKEGQEILVQVVKEPIGTKGPRLTT 81 (88)
T ss_pred CCCCCCEEEEEEEEECCCCCEEEEECCCCCCEEEECHHCCHHHHCCCCCHHHHCCCCCEEEEEEEECCCCCCCCEEEE
T ss_conf 561124899999886668748999658986899990345723513578877837799999999976687997860884