# STOCKHOLM 1.0 #=GF ID RRM_4 #=GF AC PF10598.10 #=GF DE RNA recognition motif of the spliceosomal PrP8 #=GF AU Coggill P;0000-0001-5731-1588 #=GF SE Chen X #=GF GA 23.50 23.50; #=GF TC 24.70 26.00; #=GF NC 22.40 20.60; #=GF BM hmmbuild HMM.ann SEED.ann #=GF SM hmmsearch --cut_ga HMM metaseq #=GF TP Domain #=GF RN [1] #=GF RM 15840809 #=GF RT Prp8 protein: at the heart of the spliceosome. #=GF RA Grainger RJ, Beggs JD; #=GF RL RNA. 2005;11:533-557. #=GF RN [2] #=GF RM 16431982 #=GF RT Dissection of Prp8 protein defines multiple interactions with #=GF RT crucial RNA sequences in the catalytic core of the spliceosome. #=GF RA Turner IA, Norman CM, Churcher MJ, Newman AJ; #=GF RL RNA. 2006;12:375-386. #=GF DR INTERPRO; IPR019582; #=GF DR SO; 0000417; polypeptide_domain; #=GF CC The large RNA-protein complex of the spliceosome catalyses #=GF CC pre-mRNA splicing. One of the most conserved core proteins is #=GF CC PrP8 which occupies a central position in the catalytic core of #=GF CC the spliceosome, and has been implicated in several crucial #=GF CC molecular rearrangements that occur there, and has recently come #=GF CC under the spotlight for its role in the inherited human disease, #=GF CC Retinitis Pigmentosa [1]. The RNA-recognition motif of PrP8 is #=GF CC highly conserved and provides a possible RNA binding centre for #=GF CC the 5-prime SS, BP, or 3-prime SS of pre-mRNA which are known to #=GF CC contact with Prp8. The most conserved regions of an RRM are #=GF CC defined as the RNP1 and RNP2 sequences. Recognition of RNA #=GF CC targets can also be modulated by a number of other factors, most #=GF CC notably the two loops beta1-alpha1, beta2-beta3 and the amino #=GF CC acid residues C-terminal to the RNP2 domain [2]. #=GF SQ 7 #=GS EBR58676.1/127-217 DE [subseq from] hypothetical protein GOS_7574327 [marine metagenome] #=GS ECR97079.1/73-163 DE [subseq from] hypothetical protein GOS_3074303 [marine metagenome] #=GS ECS54722.1/151-241 DE [subseq from] hypothetical protein GOS_4276057 [marine metagenome] #=GS EBS14950.1/46-136 DE [subseq from] hypothetical protein GOS_7483282 [marine metagenome] #=GS ECH17558.1/106-196 DE [subseq from] hypothetical protein GOS_6326947 [marine metagenome] #=GS EBP33407.1/270-319 DE [subseq from] hypothetical protein GOS_7928109 [marine metagenome] #=GS ECP09394.1/262-297 DE [subseq from] hypothetical protein GOS_6366765 [marine metagenome] EBR58676.1/127-217 EKVDLTMLNRLLRLIVDHNIADYCTAKNNVIIAYKDMSHTNSYGMIRGLQFASFLTQYYGLVLDLLVLGLTRASEIAGPPQMPNEFINYRD- ECR97079.1/73-163 EKVDLTMLNRLLRLIVDHNIADYCTAKNNVIIAYKDMSHTNSYGMIRGLQFASFLTQYYGLVLDLLVLGLTRASEIAGPPQMPNEFISYRD- ECS54722.1/151-241 EKVDLTLLNRLLRLILDHNLADYMTAKNNVNITFKDMNHTNSYGIVRGLQFASFVMQYYGLMLDLLVLGLTRASEIAGPPAVPNEFLAFRD- EBS14950.1/46-136 EKVDLTLLNRLMRLIVDHNIADYCTAKNNVVISYKDMSHTNSYGMIRGLQFASFMTQYYGLVLDLLLLGLTRASEIAGPANMPNEFISFRD- ECH17558.1/106-196 EKVDLTLLNRLLRLIVDHNLADYMTAKNNVVISYKDMSHTNSYGLLRGLQFASFLGQYYGLVLDLLVLGLTRSSEIAGPPNIPNDFLCFKD- EBP33407.1/270-319 DKVDITLLNRLLRLIMDHNLADYITAKNNVSIVWKDMAHVNSYGLIRGLQ------------------------------------------ ECP09394.1/262-297 EKIDLTLLNRLLRLIMDQNIADYITAKNNVVLNYKD-------------------------------------------------------- #=GC PP_cons 89***************************************************************************************87. #=GC RF xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx //