# STOCKHOLM 1.0 #=GF ID PABP #=GF AC PF00658.19 #=GF DE Poly-adenylate binding protein, unique domain #=GF AU Bateman A;0000-0002-6982-4660 #=GF SE Prosite #=GF GA 30.60 30.60; #=GF TC 30.60 30.60; #=GF NC 30.50 30.40; #=GF BM hmmbuild HMM.ann SEED.ann #=GF SM hmmsearch --cut_ga HMM metaseq #=GF TP Family #=GF RN [1] #=GF RM 12844354 #=GF RT Poly(A)-binding proteins: multifunctional scaffolds for the #=GF RT post-transcriptional control of gene expression. #=GF RA Mangus DA, Evans MC, Jacobson A; #=GF RL Genome Biol 2003;4:223. #=GF DR INTERPRO; IPR002004; #=GF DR PROSITE_PROFILE; PS50129; #=GF DR HOMSTRAD; PABP; #=GF DR SCOP; 1ifw; fa; #=GF DR SO; 0100021; polypeptide_conserved_region; #=GF CC The region featured in this family is found towards the #=GF CC C-terminus of poly(A)-binding proteins (PABPs). These are #=GF CC eukaryotic proteins that, through their binding of the 3' #=GF CC poly(A) tail on mRNA, have very important roles in the pathways #=GF CC of gene expression. They seem to provide a scaffold on which #=GF CC other proteins can bind and mediate processes such as export, #=GF CC translation and turnover of the transcripts. Moreover, they may #=GF CC act as antagonists to the binding of factors that allow mRNA #=GF CC degradation, regulating mRNA longevity. PABPs are also involved #=GF CC in nuclear transport. PABPs interact with poly(A) tails via #=GF CC RNA-recognition motifs (Pfam:PF00076) [1]. Note that the PABP #=GF CC C-terminal region is also found in members of the hyperplastic #=GF CC discs protein (HYD) family of ubiquitin ligases that contain #=GF CC HECT domains - these are also included in this family. #=GF SQ 23 #=GS ECN35986.1/32-98 DE [subseq from] hypothetical protein GOS_6256481 [marine metagenome] #=GS EBG36985.1/156-222 DE [subseq from] hypothetical protein GOS_9444531 [marine metagenome] #=GS EBR16361.1/138-204 DE [subseq from] hypothetical protein GOS_7643391 [marine metagenome] #=GS EBS41992.1/149-215 DE [subseq from] hypothetical protein GOS_7440165 [marine metagenome] #=GS ECM45492.1/105-172 DE [subseq from] hypothetical protein GOS_6358308 [marine metagenome] #=GS ECP19489.1/78-144 DE [subseq from] hypothetical protein GOS_5961353 [marine metagenome] #=GS ECS79483.1/50-114 DE [subseq from] hypothetical protein GOS_3297257 [marine metagenome] #=GS ECH32650.1/209-268 DE [subseq from] hypothetical protein GOS_5707371 [marine metagenome] #=GS EBY32588.1/9-70 DE [subseq from] hypothetical protein GOS_6311824 [marine metagenome] #=GS ECK87905.1/24-87 DE [subseq from] hypothetical protein GOS_5603977 [marine metagenome] #=GS ECC74169.1/175-238 DE [subseq from] hypothetical protein GOS_6215038 [marine metagenome] #=GS EBG79494.1/233-280 DE [subseq from] hypothetical protein GOS_9372799 [marine metagenome] #=GS EBN71037.1/6-56 DE [subseq from] hypothetical protein GOS_8201057 [marine metagenome] #=GS ECC71119.1/4-49 DE [subseq from] hypothetical protein GOS_6335016 [marine metagenome] #=GS ECK68729.1/26-91 DE [subseq from] hypothetical protein GOS_6382245 [marine metagenome] #=GS EBI22280.1/10-76 DE [subseq from] hypothetical protein GOS_9128808 [marine metagenome] #=GS ECR92749.1/109-160 DE [subseq from] hypothetical protein GOS_3251566 [marine metagenome] #=GS ECA07800.1/114-170 DE [subseq from] hypothetical protein GOS_6318414 [marine metagenome] #=GS ECC70979.1/82-133 DE [subseq from] hypothetical protein GOS_6338835 [marine metagenome] #=GS ECE31660.1/10-76 DE [subseq from] hypothetical protein GOS_3445109 [marine metagenome] #=GS ECG30327.1/42-69 DE [subseq from] hypothetical protein GOS_6317716 [marine metagenome] #=GS EBR16791.1/2-39 DE [subseq from] hypothetical protein GOS_7642740 [marine metagenome] #=GS ECE19171.1/169-244 DE [subseq from] hypothetical protein GOS_3942203 [marine metagenome] ECN35986.1/32-98 -ENLAKAPPQQVKQMLGERLYPL.IEQS...............QPELAG.....KITGMLLE...MDDSELLLLLDSKEQLDEKINEALKVL EBG36985.1/156-222 -AALAAAPPGVQKQMLGEKLFPL.VARM...............HPDLAG.....KITGMMLE...MDNSELLILLESESQLRQKVDEALRVL EBR16361.1/138-204 --ALAAASPEVQKNMIGERLYPL.VQAE...............EPNLAG.....KVTGMLLD..gMETTELLHLLESADALRSKIMEAMTVL EBS41992.1/149-215 -SQLTNASPDQQRMILGEALYPL.VEGK...............DATNAA.....KITGMLLE...MDQSEVLHLIESPDALSSKVQEAVAVL ECM45492.1/105-172 -AMLANASPAQQKNMIGEQLYPR.INQI...............VPKFAG.....KVTGMLLE..aMETAELLNLLEDKGELEKKTREAVAVL ECP19489.1/78-144 -AALAAAPPGEQKQMLGEALFPE.VQRF...............HPEQAA.....KITSMLLE...MSNTELLDMLDSDRQLQHMTNEAARVL ECS79483.1/50-114 ---FCAANPKEQKVMLGERLHAL.ISPH...............HEEFAG.....KITGMFLE...MDNASILYLIEHPDALLKKIDEALGVL ECH32650.1/209-268 ----------ERKQLIGERLYPL.VQETl.............vPLELTG.....KVTGMLLE...MGEKELLELLMNPSYLDESVHETMRVL EBY32588.1/9-70 ---------VDVRTALGNELYPL.IQRL...............QPTRAS.....KITGMLLScpgLSVPELIALLHSEQELRRWVHEALVVL ECK87905.1/24-87 --------LSERKRQLGTQIFYP.IQNM...............GGRIAApggpgKITGMILE...MGEAEIRHLIEHQDLLREKVDEASQV- ECC74169.1/175-238 --DLNNLSHEEQREYLGERIFPY.VKRK...............VGKAAP.....KITGMILS...LPKSQLLPGVRNTNVLDRMIAEASE-- EBG79494.1/233-280 ----------ESKESVGERLHPL.VSKL...............QPERAD.....KITGMLLD...MDMAELPPLLENEEALR---------- EBN71037.1/6-56 -EEFKAMSKEQQTQILGEIVFPM.VKEAlal.........ankDQSHAP.....KITGMLID...QRPQD---------------------- ECC71119.1/4-49 -----------------ENIYTM.ISRL...............EHATAG.....KITGMILE...MNIADVLKFVDPPELLQTEVDK----- ECK68729.1/26-91 --SLDALAPEARNGYLGNALYQQ.IDALv.............sCTELSS.....KLTGMILE...MPTQGILDCLTTPATLKATMDAALA-- EBI22280.1/10-76 --QLEQLSGDDRNNFVGNHIYQT.IHAA..............yGEEFAP.....TITGMLLD...ESAVEFKLLLTQNQYFQAKAHEAYELL ECR92749.1/109-160 ----------------GDRLYEI.LYEY...............YRERAG.....KIVGMLLE...CSEEELAYCMSNRLYLEERANEAVELL ECA07800.1/114-170 ------------RQLQGNLLYTLlVPSL...............PPELAR.....KITGMCLE...LEPAEVAQILASEQERSERVAEAIEVL ECC70979.1/82-133 ----------------GELLHVM.LSPL...............YPELAG.....KITGMLLE...LSSKEVAGILGSQAILDAKVQESLEVL ECE31660.1/10-76 --QLDALQGDDRNNFVGNHIYQT.IHQT..............yGEEFAP.....TITGMLLD...ESAVDYKLLLTTNNYFRSKAQEAYDLL ECG30327.1/42-69 ------------------RLFPL.VSAV...............EPQLAG.....KITGMLLE...MDNGE---------------------- EBR16791.1/2-39 -----------------------.----...............-PDRAG.....KLTGMLLE...KDNVVLLACLEETEVLKHYIQEAVV-- ECE19171.1/169-244 --------QDAKRNSVGMCLYTK.VQKAlndtsdtrailgftgTHFTAG.....KITGMILE..nLVEAEILCKPESEEYLGNTLMEACEVL #=GC PP_cons .678999*9999***********.****...............999***.....********...***********************9997 #=GC RF xxxxxxxxxxxxxxxxxxxxxxx.xxxx...............xxxxxx.....xxxxxxxx...xxxxxxxxxxxxxxxxxxxxxxxxxxx //