HHsearch alignment for GI: 254780784 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=98.32 E-value=2.6e-06 Score=70.03 Aligned_cols=74 Identities=27% Similarity=0.447 Sum_probs=59.3
Q ss_pred CCCCCCCEEEEEEEEEEEC--CEEEECCCCCCEEEEEEECCC---CCCCCHHHHCCCCCEEEEEEEEECCCCC-EEEEEE
Q ss_conf 4754686789999999415--369982879710488663144---4547855603259889999997868998-666873
Q gi|254780784|r 615 DVPEVNKIYKGQVVKVMDF--GAFVHFCGARDGLVHISQLST---ERVAKTSDVVKEGDTVWVKLLDFDDRGK-IKLSMK 688 (699)
Q Consensus 615 ~~~e~g~~y~~~v~~i~~f--Gafve~~~g~~gl~HiS~l~~---~~v~~~~d~~~~Gd~i~vk~~~~d~~g~-i~lSrk 688 (699)
T Consensus 3 ~~~~vGnIY~GkV~~v~p~i~AAFVdiG~~k~gfL~~~d~~~~~~~~~~~~~~~l~~G~~ilVQV~Ke~~~~Kgp~lT~~ 82 (88)
T cd04453 3 REPIVGNIYLGRVKKIVPGLQAAFVDIGLGKNGFLHLSDILPAYFKKHKKIAKLLKEGQEILVQVVKEPIGTKGPRLTTN 82 (88)
T ss_pred CCCCCCCEEEEEEEEECCCCCEEEEECCCCCCEEEECHHCCHHHHCCCCCHHHHCCCCCEEEEEEEECCCCCCCCEEEEE
T ss_conf 75611248999998866687489996589868999903457235135788778377999999999766879978608845