>cd05789 S1_Rrp4 S1_Rrp4: Rrp4 S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In Saccharomyces cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".

Probab=98.31 E-value=5.7e-06 Score=67.24 Aligned_cols=74 Identities=22% Similarity=0.337 Sum_probs=67.7 Q ss_pred CCCCCCEEEEEEEEEEECCEEEECCCCCCEEEEEEECCCCCCC----CHHHHCCCCCEEEEEEEEECCCCCEEEEEEE Q ss_conf 7546867899999994153699828797104886631444547----8556032598899999978689986668730 Q gi|254780784|r 616 VPEVNKIYKGQVVKVMDFGAFVHFCGARDGLVHISQLSTERVA----KTSDVVKEGDTVWVKLLDFDDRGKIKLSMKV 689 (699) Q Consensus 616 ~~e~g~~y~~~v~~i~~fGafve~~~g~~gl~HiS~l~~~~v~----~~~d~~~~Gd~i~vk~~~~d~~g~i~lSrk~ 689 (699) T Consensus 3 ~P~~GD~ViG~V~~i~~~~w~vdi~s~~~a~L~ls~v~~~~~~~d~~~mr~~l~iGDli~a~V~~v~~~~~v~L~~r~ 80 (86) T cd05789 3 IPEVGDVVIGRVTEVGFKRWKVDINSPYDAVLPLSEVNLPRTDEDELNMRSYLDEGDLIVAEVQSVDSDGSVSLHTRS 80 (86) T ss_pred CCCCCCEEEEEEEEEECCCEEEECCCCEEEEEEHHHCCCCCCCHHHHHHHHHCCCCCEEEEEEEEECCCCCEEEEECC T ss_conf 798899999999998088189974996077987454467776314677886566898999999998899979999656

HHsearch alignment for GI: 254780784 and conserved domain: cd05789