# STOCKHOLM 1.0 #=GF ID RRM_1 #=GF AC PF00076.13 #=GF DE RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain) #=GF PI rrm; #=GF AU Eddy SR, Birney E #=GF SE Published_alignment #=GF GA 17.70 17.70; 17.80 17.80; #=GF TC 17.70 17.70; 17.80 17.80; #=GF NC 17.60 17.60; 17.70 17.70; #=GF TP Domain #=GF BM hmmbuild -F HMM_ls SEED #=GF BM hmmcalibrate --seed 0 HMM_ls #=GF BM hmmbuild -f -F HMM_fs SEED #=GF BM hmmcalibrate --seed 0 HMM_fs #=GF AM byscore #=GF RN [1] #=GF RM 8290338 #=GF RT Analysis of the RNA-recognition motif and RS and RGG #=GF RT domains: conservation in metazoan pre-mRNA splicing #=GF RT factors. #=GF RA Birney E., Kumar S., Krainer A.R. #=GF RL Nucleic Acid Res 1993;21:5803-5816. #=GF DR PROSITE; PDOC00030; #=GF DR SCOP; 1sxl; sf; #=GF DR MIM; 152700; #=GF DR MIM; 109090; #=GF DR HOMSTRAD; rrm; #=GF DC The following Pfam-B families contain sequences that according to Prodom #=GF DC are members of this Pfam-A family. #=GF DR PFAMB; PB001386; #=GF DR PFAMB; PB001539; #=GF DR PFAMB; PB002431; #=GF DR PFAMB; PB003624; #=GF DR PFAMB; PB005894; #=GF DR PFAMB; PB013606; #=GF DR PFAMB; PB016829; #=GF DR PFAMB; PB018975; #=GF DR PFAMB; PB019177; #=GF DR PFAMB; PB020714; #=GF DR PFAMB; PB021686; #=GF DR PFAMB; PB021998; #=GF DR PFAMB; PB026500; #=GF DR PFAMB; PB030976; #=GF DR PFAMB; PB034566; #=GF DR PFAMB; PB035948; #=GF DR PFAMB; PB038743; #=GF DR PFAMB; PB040629; #=GF DR PFAMB; PB056790; #=GF DR PFAMB; PB057545; #=GF DR PFAMB; PB058793; #=GF DR PFAMB; PB060078; #=GF DR PFAMB; PB060583; #=GF DR PFAMB; PB063375; #=GF DR PFAMB; PB074535; #=GF DR PFAMB; PB076854; #=GF DR PFAMB; PB080687; #=GF DR PFAMB; PB086034; #=GF DR PFAMB; PB086818; #=GF DR PFAMB; PB092687; #=GF DR PFAMB; PB095757; #=GF DR PFAMB; PB097655; #=GF DR PFAMB; PB106206; #=GF DR PFAMB; PB110433; #=GF DR PFAMB; PB120339; #=GF DR PFAMB; PB121973; #=GF DR PFAMB; PB129966; #=GF DR PFAMB; PB150546; #=GF DR PFAMB; PB153066; #=GF DR PFAMB; PB168984; #=GF DR PFAMB; PB169340; #=GF DR PFAMB; PB170125; #=GF DR PFAMB; PB170679; #=GF DR PFAMB; PB170741; #=GF DR PFAMB; PB170843; #=GF DR PFAMB; PB170925; #=GF DR PFAMB; PB171421; #=GF DR PFAMB; PB171438; #=GF DR PFAMB; PB171726; #=GF DR PFAMB; PB172371; #=GF DR PFAMB; PB172690; #=GF DR PFAMB; PB172737; #=GF DR PFAMB; PB173457; #=GF DR PFAMB; PB173738; #=GF DR PFAMB; PB173755; #=GF DR PFAMB; PB174169; #=GF DR PFAMB; PB174932; #=GF DR PFAMB; PB175170; #=GF DR PFAMB; PB175198; #=GF DR PFAMB; PB175338; #=GF DR PFAMB; PB176185; #=GF DR PFAMB; PB176927; #=GF DR PFAMB; PB177040; #=GF DR PFAMB; PB177301; #=GF DR PFAMB; PB177632; #=GF DR PFAMB; PB178096; #=GF DR PFAMB; PB178198; #=GF DR PFAMB; PB178250; #=GF DR PFAMB; PB178407; #=GF DR PFAMB; PB179951; #=GF DR PFAMB; PB180991; #=GF DR PFAMB; PB182298; #=GF DR PFAMB; PB182360; #=GF DR PFAMB; PB182522; #=GF DR INTERPRO; IPR000504; #=GF CC The RRM motif is probably diagnostic of an RNA binding protein. #=GF CC RRMs are found in a variety of RNA binding proteins, including #=GF CC various hnRNP proteins, proteins implicated in regulation #=GF CC of alternative splicing, and protein components #=GF CC of snRNPs. The motif also appears in a few single stranded #=GF CC DNA binding proteins. #=GF CC The RRM structure consists of four strands #=GF CC and two helices arranged in an alpha/beta sandwich, with #=GF CC a third helix present during RNA binding in some cases #=GF CC The C-terminal beta strand (4th strand) and final helix are hard #=GF CC to align and have been omitted in the SEED alignment #=GF CC The LA proteins (Swiss:P05455) have a N terminus rrm which is #=GF CC included in the seed. There is a second region towards the #=GF CC C terminus that has some features of a rrm but does not #=GF CC appear to have the important structural core of a rrm. #=GF CC The LA proteins (Swiss:P05455) are one of the main autoantigens #=GF CC in Systemic lupus erythematosus (SLE), an autoimmune disease. #=GF SQ 79 #=GS GBP2_YEAST/221-291 AC P25555.1 #=GS ROC3_NICSY/99-170 AC P19682.1 #=GS ROC5_NICSY/116-187 AC P19684.1 #=GS ROC5_NICSY/219-290 AC P19684.1 #=GS TIA1_HUMAN/108-179 AC P31483.2 #=GS PUB1_YEAST/164-235 AC P32588.3 #=GS NAM8_YEAST/165-237 AC Q00539.2 #=GS RT19_ARATH/33-104 AC P39697.2 #=GS NSR1_YEAST/170-241 AC P27476.1 #=GS PES4_YEAST/93-164 AC P39684.2 #=GS NOP4_YEAST/28-98 AC P37838.1 #=GS PABP_SCHPO/263-333 AC P31209.2 #=GS PABP_DROME/92-162 AC P21187.3 #=GS PABP_DROME/185-256 AC P21187.3 #=GS CSTF2_HUMAN/18-89 AC P33240.1 #=GS CSTF2_HUMAN/18-89 DR PDB; 1p1t A; 18-89; #=GS RNA15_YEAST/20-91 AC P25299.1 #=GS SGN1_YEAST/66-136 AC P40561.1 #=GS IST3_YEAST/33-104 AC P40565.1 #=GS NSR1_YEAST/269-340 AC P27476.1 #=GS IF4B_HUMAN/98-168 AC P23588.1 #=GS IF4B_HUMAN/98-168 DR PDB; 1wi8 A; 98-168; #=GS ELAV_DROME/404-475 AC P16914.1 #=GS NOP3_YEAST/127-190 AC Q01560.1 #=GS GBP2_YEAST/124-193 AC P25555.1 #=GS HNRPC_HUMAN/18-82 AC P07910.4 #=GS HNRPC_HUMAN/18-82 DR PDB; 1wf2 A; 18-82; #=GS TRA2_DROME/99-170 AC P19018.1 #=GS HNRPG_HUMAN/10-81 AC P38159.3 #=GS SFRS2_CHICK/16-87 AC P30352.1 #=GS SFRS3_MOUSE/12-78 AC P84104.1 #=GS SRR55_DROME/6-69 AC P26686.4 #=GS SFRS1_HUMAN/18-86 AC Q07955.2 #=GS SFRS1_HUMAN/18-86 DR PDB; 1x4a A; 26-94; #=GS NONA_DROME/304-369 AC Q04047.2 #=GS RU17_DROME/104-175 AC P17133.2 #=GS PABP_DROME/4-75 AC P21187.3 #=GS ELAV4_HUMAN/48-119 AC P26378.1 #=GS ELAV4_HUMAN/48-119 DR PDB; 1fxl A; 41-112; #=GS ELAV4_HUMAN/48-119 DR PDB; 1g2e A; 41-112; #=GS SXL_DROME/127-198 AC P19339.1 #=GS SXL_DROME/127-198 DR PDB; 3sxl A; 127-198; #=GS SXL_DROME/127-198 DR PDB; 1b7f B; 127-198; #=GS SXL_DROME/127-198 DR PDB; 3sxl C; 127-198; #=GS SXL_DROME/127-198 DR PDB; 1b7f A; 127-198; #=GS SXL_DROME/127-198 DR PDB; 3sxl B; 127-198; #=GS SXL_DROME/127-198 DR PDB; 2sxl ; 6-77; #=GS ELAV_DROME/250-322 AC P16914.1 #=GS SXL_DROME/213-285 AC P19339.1 #=GS SXL_DROME/213-285 DR PDB; 3sxl A; 213-285; #=GS SXL_DROME/213-285 DR PDB; 1b7f B; 213-285; #=GS SXL_DROME/213-285 DR PDB; 3sxl C; 213-285; #=GS SXL_DROME/213-285 DR PDB; 1sxl ; 16-88; #=GS SXL_DROME/213-285 DR PDB; 1b7f A; 213-285; #=GS SXL_DROME/213-285 DR PDB; 3sxl B; 213-285; #=GS TIA1_HUMAN/216-281 AC P31483.2 #=GS TIA1_HUMAN/9-78 AC P31483.2 #=GS PUB1_YEAST/77-147 AC P32588.3 #=GS SQD_DROME/138-208 AC Q08473.3 #=GS ROA1_BOVIN/106-176 AC P09867.1 #=GS ROAA_MOUSE/161-231 AC Q99020.1 #=GS GRP10_BRANA/8-79 AC Q05966.1 #=GS ROAA_MOUSE/77-147 AC Q99020.1 #=GS SQD_DROME/58-128 AC Q08473.3 #=GS RB97D_DROME/34-104 AC Q02926.1 #=GS U2AF2_SCHPO/312-383 AC P36629.1 #=GS U2AF2_HUMAN/261-332 AC P26368.4 #=GS U2AF2_HUMAN/261-332 DR PDB; 2u2f A; 4-75; #=GS PUB1_YEAST/343-408 AC P32588.3 #=GS RNP1_YEAST/37-109 AC P32385.2 #=GS GBP2_YEAST/351-421 AC P25555.1 #=GS NONA_DROME/378-448 AC Q04047.2 #=GS SFPQ_HUMAN/373-443 AC P23246.2 #=GS MODU_DROME/342-410 AC P13469.2 #=GS NUCL_CHICK/283-352 AC P15771.1 #=GS PES4_YEAST/305-374 AC P39684.2 #=GS YHH5_YEAST/315-384 AC P38760.1 #=GS YHC4_YEAST/348-415 AC P38741.1 #=GS MODU_DROME/422-484 AC P13469.2 #=GS PRP24_YEAST/212-284 AC P49960.1 #=GS MEI2_SCHPO/197-265 AC P08965.1 #=GS NOP4_YEAST/292-363 AC P37838.1 #=GS MODU_DROME/260-326 AC P13469.2 #=GS HNRPF_HUMAN/113-183 AC P52597.3 #=GS RU1A_YEAST/229-293 AC P32605.1 #=GS RU2B_HUMAN/153-220 AC P08579.1 #=GS SNRPA_HUMAN/210-276 AC P09012.3 #=GS SNRPA_HUMAN/210-276 DR PDB; 2u1a ; 17-83; #=GS WHI3_YEAST/540-614 AC P34761.1 #=GS CPO_DROME/453-526 AC Q01617.3 #=GS NOP3_YEAST/202-270 AC Q01560.1 #=GS SFRS1_HUMAN/123-187 AC Q07955.2 #=GS PTBP1_HUMAN/186-253 AC P26599.1 #=GS PTBP1_HUMAN/186-253 DR PDB; 2adb A; 186-253; #=GS PTBP1_HUMAN/186-253 DR PDB; 1sjr A; 49-116; #=GS RNA12_YEAST/200-267 AC P32843.1 #=GS SSB1_YEAST/39-114 AC P10080.2 #=GS MODU_DROME/177-246 AC P13469.2 #=GS PRP24_YEAST/43-111 AC P49960.1 #=GS PRP24_YEAST/119-190 AC P49960.1 #=GS LA_HUMAN/113-182 AC P05455.2 #=GS LA_HUMAN/113-182 DR PDB; 1zh5 A; 113-182; #=GS LA_HUMAN/113-182 DR PDB; 1zh5 B; 113-182; #=GS LA_HUMAN/113-182 DR PDB; 1yty A; 113-182; #=GS LA_HUMAN/113-182 DR PDB; 1yty B; 113-182; #=GS LA_HUMAN/113-182 DR PDB; 1s79 A; 113-182; GBP2_YEAST/221-291 VFIINL..PYSMNWQSLKDMFKE.CGHV.LRADVELD....FNGFSRGFGSVIYPTEDEMIRAIDTFNG.MEVEGRVLEV ROC3_NICSY/99-170 LFVGNL..PYDIDSEGLAQLFQQ.AGVV.EIAEVIYN...RETDRSRGFGFVTMSTVEEADKAVELYSQ.YDLNGRLLTV ROC5_NICSY/116-187 LYVGNL..PFSMTSSQLSEIFAE.AGTV.ANVEIVYD...RVTDRSRGFAFVTMGSVEEAKEAIRLFDG.SQVGGRTVKV ROC5_NICSY/219-290 LYVANL..SWALTSQGLRDAFAD.QPGF.MSAKVIYD...RSSGRSRGFGFITFSSAEAMNSALDTMNE.VELEGRPLRL TIA1_HUMAN/108-179 VFVGDL..SPQITTEDIKAAFAP.FGRI.SDARVVKD...MATGKSKGYGFVSFFNKWDAENAIQQMGG.QWLGGRQIRT PUB1_YEAST/164-235 LFVGDL..NVNVDDETLRNAFKD.FPSY.LSGHVMWD...MQTGSSRGYGFVSFTSQDDAQNAMDSMQG.QDLNGRPLRI NAM8_YEAST/165-237 IFVGDL..APNVTESQLFELFINRYAST.SHAKIVHD...QVTGMSKGYGFVKFTNSDEQQLALSEMQG.VFLNGRAIKV RT19_ARATH/33-104 LYIGGL..SPGTDEHSLKDAFSS.FNGV.TEARVMTN...KVTGRSRGYGFVNFISEDSANSAISAMNG.QELNGFNISV NSR1_YEAST/170-241 IFVGRL..SWSIDDEWLKKEFEH.IGGV.IGARVIYE...RGTDRSRGYGYVDFENKSYAEKAIQEMQG.KEIDGRPINC PES4_YEAST/93-164 LFIGDL..HETVTEETLKGIFKK.YPSF.VSAKVCLD...SVTKKSLGHGYLNFEDKEEAEKAMEELNY.TKVNGKEIRI NOP4_YEAST/28-98 LFVRSI..PQDVTDEQLADFFSN.FAPI.KHAVVVKD....TNKRSRGFGFVSFAVEDDTKEALAKARK.TKFNGHILRV PABP_SCHPO/263-333 VYIKNL..DTEITEQEFSDLFGQ.FGEI.TSLSLVKD....QNDKPRGFGFVNYANHECAQKAVDELND.KEYKGKKLYV PABP_DROME/92-162 VFIKNL..DRAIDNKAIYDTFSA.FGNI.LSCKVATD....EKGNSKGYGFVHFETEEAANTSIDKVNG.MLLNGKKVYV PABP_DROME/185-256 VYVKNF..TEDFDDEKLKEFFEP.YGKI.TSYKVMSK....EDGKSKGFGFVAFETTEAAEAAVQALNGKDMGEGKSLYV CSTF2_HUMAN/18-89 VFVGNI..PYEATEEQLKDIFSE.VGPV.VSFRLVYD...RETGKPKGYGFCEYQDQETALSAMRNLNG.REFSGRALRV #=GR CSTF2_HUMAN/18-89 SS EEE-S-..-TT--HHHHHHHHHT.TS-E.EEEEEEEE...TTTTEEEEEEEEEES-HHHHHHHHHHSSS.EEETTEEEEE RNA15_YEAST/20-91 VYLGSI..PYDQTEEQILDLCSN.VGPV.INLKMMFD...PQTGRSKGYAFIEFRDLESSASAVRNLNG.YQLGSRFLKC SGN1_YEAST/66-136 IFVGNI..TPDVTPEQIEDHFKD.CGQI.KRITLLYD...RNTGTPKGYGYIEFESPAYREKALQ.LNG.GELKGKKIAV IST3_YEAST/33-104 IYIGNL..NRELTEGDILTVFSE.YGVP.VDVILSRD...ENTGESQGFAYLKYEDQRSTILAVDNLNG.FKIGGRALKI NSR1_YEAST/269-340 LFLGNL..SFNADRDAIFELFAK.HGEV.VSVRIPTH...PETEQPKGFGYVQFSNMEDAKKALDALQG.EYIDNRPVRL IF4B_HUMAN/98-168 AFLGNL..PYDVTEESIKEFFRG.LNIS..AVRLPR..EPSNPERLKGFGYAEFEDLDSLLSALS.LNE.ESLGNRRIRV #=GR IF4B_HUMAN/98-168 SS EEEES-..-TT--HHHHHHHT-S.S-EE..EEE--B..-SS-SSSB-S-EEEEESSHHHHHHHGG.GGS.-EETTEE-EE ELAV_DROME/404-475 IFIYNL..APETEEAALWQLFGP.FGAV.QSVKIVKD...PTTNQCKGYGFVSMTNYDEAAMAIRALNG.YTMGNRVLQV NOP3_YEAST/127-190 LFVRPF..PLDVQESELNEIFGP.FGPM.KEVKILN...........GFAFVEFEEAESAAKAIEEVHG.KSFANQPLEV GBP2_YEAST/124-193 IFVRNL..TFDCTPEDLKELFGT.VGEV.VEADIIT.....SKGHHRGMGTVEFTKNESVQDAISKFDG.ALFMDRKLMV HNRPC_HUMAN/18-82 VFIGNL.NTLVVKKSDVEAIFSK.YGKI.VGCSVHK...........GFAFVQYVNERNARAAVAGEDG.RMIAGQVLDI #=GR HNRPC_HUMAN/18-82 SS EEEEEE.-TTT--HHHHHHTTGG.GS-E.EEEEEET...........EEEEEEESSHHHHHHHHHTTSS.-EETTEE-EE TRA2_DROME/99-170 IGVFGL..NTNTSQHKVRELFNK.YGPI.ERIQMVID...AQTQRSRGFCFIYFEKLSDARAAKDSCSG.IEVDGRRIRV HNRPG_HUMAN/10-81 LFIGGL..NTETNEKALEAVFGK.YGRI.VEVLLMKD...RETNKSRGFAFVTFESPADAKDAARDMNG.KSLDGKAIKV SFRS2_CHICK/16-87 LKVDNL..TYRTSPDTLRRVFEK.YGRV.GDVYIPRD...RYTKESRGFAFVRFHDKRDAEDAMDAMDG.AVLDGRELRV SFRS3_MOUSE/12-78 VYVGNL..GNNGNKTELERAFGY.YGPL.RSVWVARN........PPGFAFVEFEDPRDAADAVRELDG.RTLCGCRVRV SRR55_DROME/6-69 VYVGGL..PYGVRERDLERFFKG.YGRT.RDILIKN...........GYGFVEFEDYRDADDAVYELNG.KELLGERVVV SFRS1_HUMAN/18-86 IYVGNL..PPDIRTKDIEDVFYK.YGAI.RDIDLKN......RRGGPPFAFVEFEDPRDAEDAVYGRDG.YDYDGYRLRV #=GR SFRS1_HUMAN/18-86 SS EEES--..TT--HHHHHHHHHTT.S-EE.EEEE--S......SSSS--EEEEES-HHHHHHHHHHHTT-.EETTEE-EEE NONA_DROME/304-369 LYVGNL..TNDITDDELREMFKP.YGEI.SEIFSNLD.........KNFTFLKVDYHPNAEKAKRALDG.SMRKGRQLRV RU17_DROME/104-175 LFIARI..NYDTSESKLRREFEF.YGPI.KKIVLIHD...QESGKPKGYAFIEYEHERDMHAAYKHADG.KKIDSKRVLV PABP_DROME/4-75 LYVGDL..PQDVNESGLFDKFSS.AGPV.LSIRVCRD...VITRRSLGYAYVNFQQPADAERALDTMNF.DLVRNKPIRI ELAV4_HUMAN/48-119 LIVNYL..PQNMTQEEFRSLFGS.IGEI.ESCKLVRD...KITGQSLGYGFVNYIDPKDAEKAINTLNG.LRLQTKTIKV #=GR ELAV4_HUMAN/48-119 SS EEEES-..-TT--HHHHHHHHHT.TS-E.EEEEEEE-...TTT--EEEEEEEEESSHHHHHHHHHHHTT.-EETTEE-EE SXL_DROME/127-198 LIVNYL..PQDMTDRELYALFRA.IGPI.NTCRIMRD...YKTGYSFGYAFVDFTSEMDSQRAIKVLNG.ITVRNKRLKV #=GR SXL_DROME/127-198 SS EEEES-..-TT--HHHHHHHHHT.TS-E.EEEEEEEE...SSSTEEECEEEEEESSHHHHHHHHHHHTT.-EETTEE-EE ELAV_DROME/250-322 LYVSGL..PKTMTQQELEAIFAP.FGAI.ITSRILQN..AGNDTQTKGVGFIRFDKREEATRAIIALNG.TTPSSCTDPI SXL_DROME/213-285 LYVTNL..PRTITDDQLDTIFGK.YGSI.VQKNILRD...KLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLS #=GR SXL_DROME/213-285 SS EEEES-..-TTS-HHHHHHHHGC.CS-E.EEEEEEE-...TTT--EEEEEEEEESSHHHHHHHHHHHST-S-TTSSS--E TIA1_HUMAN/216-281 VYCGGV..TSGLTEQLMRQTFSP.FGQI.MEIRVFPD.........KGYSFVRFNSHESAAHAIVSVNG.TTIEGHVVKC TIA1_HUMAN/9-78 LYVGNL..SRDVTEALILQLFSQ.IGPC.KNCKMIMD.....TAGNDPYCFVEFHEHRHAAAALAAMNG.RKIMGKEVKV PUB1_YEAST/77-147 LYVGNL..DKAITEDILKQYFQV.GGPI.ANIKIMID....KNNKNVNYAFVEYHQSHDANIALQTLNG.KQIENNIVKI SQD_DROME/138-208 IFVGGL..TTEISDEEIKTYFGQ.FGNI.VEVEMPFD...KQKSQRKGFCFITFDSEQVVTDLLK.TPK.QKIAGKEVDV ROA1_BOVIN/106-176 IFVGGI..KEDTEEHHLRDYFEQ.YGKI.EVIEIMTD...RGSGKKRGFAFVTFDDHDSVDKIVI.QKY.HTVNGHNCEV ROAA_MOUSE/161-231 IFVGGL..NPEATEEKIREYFGQ.FGEI.EAIELPID...PKLNKRRGFVFITFKEEDPVKKVLE.KKF.HTVSGSKCEI GRP10_BRANA/8-79 CFVGGL..AWATGDAELERTFSQ.FGEV.IDSKIIND...RETGRSRGFGFVTFKDEKSMKDAIDEMNG.KELDGRTITV ROAA_MOUSE/77-147 MFVGGL..SWDTSKKDLKDYFTK.FGEV.VDCTIKMD...PNTGRSRGFGFILFKDSSSVEKVLD.QKE.HRLDGRVIDP SQD_DROME/58-128 LFVGGL..SWETTEKELRDHFGK.YGEI.ESINVKTD...PQTGRSRGFAFIVFTNTEAIDKVSA.ADE.HIINSKKVDP RB97D_DROME/34-104 LFIGGL..APYTTEENLKLFYGQ.WGKV.VDVVVMRD...AATKRSRGFGFITYTKSLMVDRAQE..NRPHIIDGKTVEA U2AF2_SCHPO/312-383 IYISNL..PLNLGEDQVVELLKP.FGDL.LSFQLIKN...IADGSSKGFCFCEFKNPSDAEVAISGLDG.KDTYGNKLHA U2AF2_HUMAN/261-332 LFIGGL..PNYLNDDQVKELLTS.FGPL.KAFNLVKD...SATGLSKGYAFCEYVDINVTDQAIAGLNG.MQLGDKKLLV #=GR U2AF2_HUMAN/261-332 SS EEEE--..-SS--SHHHHHHHTS.SS-E.EEEEEE--...-SSS----EEEEEESSSHHHHHHHHTSSS.---SSS--EE PUB1_YEAST/343-408 AYIGNI..PHFATEADLIPLFQN.FGFI.LDFKHYPE.........KGCCFIKYDTHEQAAVCIVALAN.FPFQGRNLRT RNP1_YEAST/37-109 LYVGNL..PKNCRKQDLRDLFEPNYGKI.TINMLKKK...PLKKPLKRFAFIEFQEGVNLKKVKEKMNG.KIFMNEKIVI GBP2_YEAST/351-421 IYCSNL..PFSTARSDLFDLFGP.IGKI.NNAELKP....QENGQPTGVAVVEYENLVDADFCIQKLNN.YNYGGCSLQI NONA_DROME/378-448 LRVSNL..TPFVSNELLYKSFEI.FGPI.ERASITVD....DRGKHMGEGIVEFAKKSSASACLRMCNE.KCFFLTASLR SFPQ_HUMAN/373-443 LSVRNL..SPYVSNELLEEAFSQ.FGPI.ERAVVIVD....DRGRSTGKGIVEFASKPAARKAFERCSE.GVFLLTTTPR MODU_DROME/342-410 LVVENVGKHESYSSDALEKIFKK.FGDV.EEIDVVC........SKAVLAFVTFKQSDAATKALAQLDG.KTVNKFEWKL NUCL_CHICK/283-352 LFVKNL..TPTKDYEELRTAIKEFFGKK..NLQVSEV....RIGSSKRFGYVDFLSAEDMDKALQ.LNG.KKLMGLEIKL PES4_YEAST/305-374 IFIKNL..PTITTRDDILNFFSE.VGPI.KSIYLSN.....ATKVKYLWAFVTYKNSSDSEKAIKRYNN.FYFRGKKLLV YHH5_YEAST/315-384 ILVKNL..PSDTTQEEVLDYFST.IGPI.KSVFISEK.....QANTPHKAFVTYKNEEESKKAQKCLNK.TIFKNHTIWV YHC4_YEAST/348-415 IFVGQL..DKETTREELNRRFST.HGKI.QDINLIFK.......PTNIFAFIKYETEEAAAAALESENH.AIFLNKTMHV MODU_DROME/422-484 ILVTNL..TSDATEADLRKVFND.SGEI.ESIIMLG...........QKAVVKFKDDEGFCKSFL.ANE.SIVNNAPIFI PRP24_YEAST/212-284 IMIRNL.STELLDENLLRESFEG.FGSI.EKINIPAG..QKEHSFNNCCAFMVFENKDSAERALQ.MNR.SLLGNREISV MEI2_SCHPO/197-265 LFVTNL..PRIVPYATLLELFSK.LGDV.KGIDTSSL.......STDGICIVAFFDIRQAIQAAKSLRSQRFFNDRLLYF NOP4_YEAST/292-363 VFVRNV..PYDATEESLAPHFSK.FGSV.KYALPVID...KSTGLAKGTAFVAFKDQYTYNECIKNAPA.AGSTSLLIGD MODU_DROME/260-326 VVVGLI..GPNITKDDLKTFFEK.VAPV.EAVTISSN.......RLMPRAFVRLASVDDIPKALK.LHS.TELFSRFITV HNRPF_HUMAN/113-183 VRLRGL..PFGCTKEEIVQFFSG.LEIVPNGITLPVD....PEGKITGEAFVQFASQELAEKALG.KHK.ERIGHRYIEV RU1A_YEAST/229-293 LLIQNL..PSGTTEQLLSQILGN.EALV..EIRLVSV.........RNLAFVEYETVADATKIKNQLGS.TYKLQNNDVT RU2B_HUMAN/153-220 LFLNNL..PEETNEMMLSMLFNQ.FPGF.KEVRLVPG........RHDIAFVEFENDGQAGAARDALQGFKITPSHAMKI SNRPA_HUMAN/210-276 LFLTNL..PEETNELMLSMLFNQ.FPGF.KEVRLVPG........RHDIAFVEFDNEVQAGAARDALQG.FKITQNNAMK #=GR SNRPA_HUMAN/210-276 SS EEE---..SS--HHHHHHHHHTS.TTEE.EEE--TTT........SSEEEEEES-HHHHHHHHHHTTT-.-SSSS----- WHI3_YEAST/540-614 LYVGNL..PSDATEQELRQLFSG.QEGF.RRLSFRNKNTTSNGHSHGPMCFVEFDDVSFATRALAELYG.RQLPRSTVSS CPO_DROME/453-526 LFVSGL..PMDAKPRELYLLFRA.YEGY.EGSLLKV..TSKNGKTASPVGFVTFHTRAGAEAAKQDLQGVRFDPDMPQTI NOP3_YEAST/202-270 ITMKNL..PEGCSWQDLKDLARE.NSLE.TTFSSVN......TRDFDGTGALEFPSEEILVEALERLNN.IEFRGSVITV SFRS1_HUMAN/123-187 VVVSGL..PPSGSWQDLKDHMRE.AGDV.CYADVYRD..........GTGVVEFVRKEDMTYAVRKLDN.TKFRSHEGET PTBP1_HUMAN/186-253 IIVENL..FYPVTLDVLHQIFSK.FGTV...LKIIT.....FTKNNQFQALLQYADPVSAQHAKLSLDG.QNIYNACCTL #=GR PTBP1_HUMAN/186-253 SS EEC-S-..-STTHHHHHHHHHTT.TS-E...EEEEE.....EECTTEEEEEEEES-HHHHHHHHHHHCC.B-SSSTTSEE RNA12_YEAST/200-267 IVIKFQ..GPALTEEEIYSLFRR.YGTI...IDIFP.....PTAANNNVAKVRYRSFRGAISAKNCVSG.IEIHNTVLHI SSB1_YEAST/39-114 IFIGNV..AHECTEDDLKQLFVEEFGDE.VSVEIPIKEHTDGHIPASKHALVKFPTKIDFDNIKENYDT.KVVKDREIHI MODU_DROME/177-246 VFVTNL..PNEYLHKDLVALFAK.FGRL.SALQRFTN......LNGNKSVLIAFDTSTGAEAVLQAKPKALTLGDNVLSV PRP24_YEAST/43-111 VLVKNL..PKSYNQNKVYKYFKH.CGPI.IHVDVAD.....SLKKNFRFARIEFARYDGALAAIT.KTH.KVVGQNEIIV PRP24_YEAST/119-190 LWMTNF..PPSYTQRNIRDLLQD.INVVALSIRLPSL....RFNTSRRFAYIDVTSKEDARYCVEKLNG.LKIEGYTLVT LA_HUMAN/113-182 VYIKGF..PTDATLDDIKEWLED.KGQV.LNIQMRR....TLHKAFKGSIFVVFDSIESAKKFVE.TPG.QKYKETDLLI #=GR LA_HUMAN/113-182 SS EEEE--..-TT--HHHHHHHHCT.SS-E.EEEEEEE....-TTTSEEEEEEEEESSHHHHHHHHH.SSS.-EETTEE-EE #=GC SS_cons EEEESE..TTTTHHHHHHHHHTT.TSEE.EEEEEEEE..STTTTSEEEEEEEEESSHHHHHHHHHHHSS.EEETTEEEEE #=GC seq_cons laVssL..s.ssoccpLcphFpp.aGtl.hshplhtc.....ptpscGauFVpFpspcsAppAlpthsu.pplpu+plpl //