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KOG4676
Query: [A] KOG4676 Splicing factor, arginine/serine-rich, from COG0312

Results of FFAS03 search in COG0312
Master-slave alignment does not show gaps in the query sequence, use ali links to display alignment between query and templates.
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# Score Template Links and tools%idFirst MSNTTVVPSTAGPGPSGGPGGGGGGGGGGGGTEVIQVTNVSPSASSEQMRTLFGFLGKIDELRLFPPDDSPLPVSSRVCFVKFHDPDSAVVAQHLTNTVFVDRALIVVPYAEGVIPDEAKALSLLAPANAVAGLLPGGGLLPTPNPLTQIGAVPLAALGAPTLDPALAALGLPGANLNSQSLAADQLLKLMSTVDPKLNHVAAGLVSPSLKSDTSSKEIEEAMKRVREAQSLISAAIEPDKKEEKRRHSRSRSRSRRRRTPSSSRHRRSRSRSRRRSHSKSRSRRRSKSPRRRRSHSRERGRRSRSTSKTRDKKKEDKEKKRSKTPPKSYSTARRSRSASRERRRRRSRSGTRSPKKPRSPKRKLSRSPSPRRHKKEKKKDKDKERSRDERERSTSKKKKSKDKEKDRERKSESDKDVKQVTRDYDEEEQGYDSEKEKKEEKKPIETGSPKTKECSVEKGTGDSLRESKVNGDDHHEEDMDMSDLast
1 -67.100[A] KOG4676 Splicing factor, arginine/serine-rich  ali  100  1MSNTTVVPSTAGPGPSGGPGGGGGGGGGGGGTEVIQVTNVSPSASSEQMRTLFGFLGKIDELRLFPPDDSPLPVSSRVCFVKFHDPDSAVVAQHLTNTVFVDRALIVVPYAEGVIPDEAKALSLLAPANAVAGLLPGGGLLPTPNPLTQIGAVPLAALGAPTLDPALAALGLPGANLNSQSLAADQLLKLMSTVDPKLNHVAAGLVSPSLKSDTSSKEIEEAMKRVREAQSLISAAIEPDKKEEKRRHSRSRSRSRRRRTPSSSRHRRSRSRSRRRSHSKSRSRRRSKSPRRRRSHSRERGRRSRSTSKTRDKKKEDKEKKRSKTPPKSYSTARRSRSASRERRRRRSRSGTRSPKKPRSPKRKLSRSPSPRRHKKEKKKDKDKERSRDERERSTSKKKKSKDKEKDRERKSESDKDVKQVTRDYDEEEQGYDSEKEKKEEKKPIETGSPKTKECSVEKGTGDSLRESKVNGDDHHEEDMDMSD 484
2 -35.300[A] KOG4849 mRNA cleavage factor I subunit/CPSF subunit  ali follow..  453............................................................................................................................................................................................................................................SRNRTVSSSAIARAVSDAAAGEYSSAIETLVTAISLIKQSKVAHDERCKILISSLQDTLHGIEAKSYNRRERSRSRERSHRSRQRRERSTSRYRERSRERERDRDRERERDGGRSVRPRKSPEPVVAEAAEAPSSKRYYEDRERYRSSDRER-RDRDRDRDRERERDRDRHFTNDGRGLPLDPSNFTSQNPGNIKTGRPKSAAVAGGSMEKPRGQSAWDIIDTDAHWIIKQQTTSIPAPPSSQQNFN. 698
3 -23.600[A] KOG0113 U1 small nuclear ribonucleoprotein (RRM superfamily)  ali follow..  12  102................................RTLFIARINYDTSESKLRREFEFYGPIKKIVLIH--DQESGKPKGYAFIEYEHERDMHAAYHADGKKIDSKRVLV------------------------------------------------------------------------------DVERARTVKGWLPRRLGGGLGGTRRGGNDVNIKHSGREDNERERERYRLEREREDREGPGRGGGSNGLDARPGRGFGAERRRSRSRERRDRERDRGRGAVASNGRSRSRSRERRKRRAGSRERYDEFDRRDRRDRERERDRDREREKKKKRSKSRERESSRERRERKRERRDRERGTGSGGDVKERKPDFRDMDVIKIKEEPVDDGYPTFDYQNATIKREIDDEDEEKYRPPPAHHNMFSVPPPPILGRGNASTNPNPDNGQQSSGDPSWWRQ.......................... 448
4 -23.100[A] KOG4209 Splicing factor RNPS1, SR protein superfamily  ali follow..  15  59.............QSNSSQSLLTPEEKAEADAKSVYVGNVDYGATAEEIEQHFHGCGSVSRVTIQ---DRFSGHPKGFAYVEFTEKEGMQNALAMTDSLLRGRQIKVDPKRT.................................................................................................................................................................................................................................................................................................................................................................................... 155
5 -22.900[A] KOG0107 Alternative splicing factor SRp20/9G8 (RRM superfamily)  ali follow..  16  4..................................VYVGNLDPRVTERELEDEFRSFGVIRSVWVARR-------PPGYAFLDFEDSRDARDAIRVDGKNGWRVEQSHN........................................................................................................................................................................................................................................................................................................................................................................................ 71
6 -22.300[R] KOG0114 Predicted RNA-binding protein (RRM superfamily)  ali follow..  24  12.............................EVNRLLYVRNLPYKITSDEMYDIFGKFGAIRQIRVGNTPE-----TRGTAFVVYEDIFDAKNACDLSGFNVCNRYLVVLYYQS.................................................................................................................................................................................................................................................................................................................................................................................... 90
7 -22.200[S] KOG4356 Uncharacterized conserved protein  ali follow..  541......................................................................................................................................................................................................QYHVKSKGKVNAKKDNAPLDVKFERNQEGHALKVTIRPGTKEEEEDKENQDQEPESDQQQQQQVQNKKPGKKQRKKNKKERSLSESACADMILQEPLAKTNELQPRATFKLPPQRKQRSYSECNDSTGRSHRGILKRFSRYGPRPSMSDSWSSIDDSSSYSCSVDASGTSLFSQSFGGIPEEDRSDAGLSESCKKTVRFNDHIMKQVFRLDSSILGQRKKNQKRRDLKLRAQQRRLSEGDSVDYEETRGSALKQEENPSRNCNDSGLDLTGAAGAHSNNNESDAKN 826
8 -22.200[J] KOG0899 Mitochondrial/chloroplast ribosomal protein S19  ali follow..  15  48.................NVPVSSMLGSLRYMSTKLYIGGLSPGTDEHSLKDAFSSFNGVTEARVMTNKVT--GRSRGYGFVNFISEDSANSAISMNGQELNGFNISVNVAKDWPSLPL.............................................................................................................................................................................................................................................................................................................................................................................. 147
9 -22.100[A] KOG0121 Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily)  ali follow..  23  31.................................TLYVGNLSFYTTEEQIHELFSRCGDVRVIVMGLDKYK--KTPCGFCFVEYYVRSEAEAAMRVNGTRLDDRLIRV......................................................................................................................................................................................................................................................................................................................................................................................... 103
10 -22.000[R] KOG0126 Predicted RNA-binding protein (RRM superfamily)  ali follow..  11  35...............................SAWIFLGGLPYELTEGDIICVFSQYGEIVNINLVR--DKKTGKSKGFCFLCYEDQRSTILAVDFNGIKIKGRTIRV---------------------------------------------------------------------------------------------------------DHVSNYRAPKDSEEIDDVTRQLQEKGCGARTPSPSLSESSEDEKPTKKHKKDKKEKKKKKKEKEKADREVQAEQPSSSSPRRKTVKEKDDTGPKKHSSKNSERAQKSEPREGQKLPKSRTAYSGGAEDLERELKKEKPKHEHKSSSRREAREEKTRIRDRGRLQMHILAGIMGVLKGVVIEVEVGAEINPIGIKGPDAPGRGVLRIPVTVGVTEDFSCTVDLE................................................. 332
11 -21.800[A] KOG0108 mRNA cleavage and polyadenylation factor I complex, subunit RNA15  ali follow..  19  4.............................TAGNVVFVGNIPYDVSEQQMTEIFNQVGPVKTFKLVLDPET--GSGKGYGFCEFFDSETTAMAVRLNNSELGPRKIRVEFPSNDPRRNQ.............................................................................................................................................................................................................................................................................................................................................................................. 91
12 -21.800[R] KOG2135 Proteins containing the RNA recognition motif  ali follow..  366................................CTLQVAKIPPEMTIAKLNEHFATFGTVDNIQVRYNGE------IDSALVTYASKFDAGKAYKSPTPVLNNRFIKV-----------------------------------------------------------------------------------------------HNPGGEGSENATGKPSSPTSPPKPVEKPKIATVQESKFVSVAAQNYRKQIQDAKERLTKEKSILSTLVQAQNQHNIILDKWMVKQKELLIKARTSTDETDKKNATKLVKHLHKKIKACKEEVDGILLKISEKSMVVDEIAAQIEELKNPQKSDDSTRKRKAGSDGDEPQSKMSSVVIVRGVTDELVTDLMAHMEKFGEVFDHSVKADDDGLITAVFPFRKTGDALKAMADGKVLNGVDLEMELKTERIEEIPSTDTNMSADQLLAAIPSNLESDEEDDLLND 719
13 -21.800[A] KOG4207 Predicted splicing factor, SR protein superfamily  ali follow..  21  11.............................DGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYI----EPHTKAPRGFAFVRFHDRSDAQDAEAMDGAVLDERELRVRMARY.................................................................................................................................................................................................................................................................................................................................................................................... 92
14 -21.700[R] KOG4454 RNA binding protein (RRM superfamily)  ali follow..  24  10.............................PEERTIYVANFSEEVDEELLEELFIQAGPVVKVILRDVRDS----NAKFALVEFEDELSVLFAIEMNGVRLFNQELQV......................................................................................................................................................................................................................................................................................................................................................................................... 84
15 -21.600[R] KOG0130 RNA-binding protein RBM8/Tsunagi (RRM superfamily)  ali follow..  19  74.................................ILFVTSIHEEAQEDEIQEKFCDYGEIKNIHL----DRRTGFSKGYALVEYETHKQALAAKELNGAEIMGQTIQV......................................................................................................................................................................................................................................................................................................................................................................................... 146
16 -21.400[R] KOG4208 Nucleolar RNA-binding protein NIFK  ali follow..  16  6...............................RSAGPILSLNP-QEDAELQKEVAQCDTVTRFRLSR--KKRTGNSKGYAFVEFESEDVAKIVTEMNSYLFGERLLEC......................................................................................................................................................................................................................................................................................................................................................................................... 79
17 -21.000[R] KOG0118 FOG: RRM domain  ali follow..  18  153............QGKRRMNARTSMAQREDVIRRTVYVSDLDQQVTEEQLAGLFVSCGQVVDCRICGDPNS----VLRFAFIEFTDEEGAMTALNLSGTMLGFYPVKVLPSKTAIAPVNPTFLPRTEDERE.................................................................................................................................................................................................................................................................................................................................................................. 266
18 -21.000[Z] KOG3756 Pinin (desmosome-associated protein)  ali follow..  15  445...............................................................................................................................................................................................................GKENVSALDMEKESEEKEEKESEPQPEPVAQPQPQSQPQLQLQSQSQPVLQSQPPSQPEDLSLAVLQPTPQVTQEQGHLLPERKDFPVESVKLTEVPVEPVLTVHPESKSKTKTRSRSRGRARNKTSKSRSRSSSSSSSSSSSTSSSSGSSSSSGSSSSRSSSSSSSSTSGSSSRDSSSSTSSSSESRSRSRGRGHNRDRKHRRSVDRKRRDTSGLERSHKSSKGGSSRDTKGSKDKNSRSDRKRSISESSRSGKRSSRSERDRKSDRKDKRR.... 717
19 -19.900[R] KOG1457 RNA binding protein (contains RRM repeats)  ali follow..  14  75..............QDTVSVLFVHELKTRPGVRTLFVSGLPVDIKPRELYLLFRPFKGYEGSLIKLTARQP------VGFVIFDSRAGAEAAKNLNGIRF-PQTLRLEFAKA.................................................................................................................................................................................................................................................................................................................................................................................... 170
20 -19.800[K] KOG2068 MOT2 transcription factor  ali follow..  10  90.............KPKSSDGRKPLTSVRVVQRNLVYIVGLPLNLADEDLKEYFGQYGKVLKVSMSRTATGLIQNNTCSVYITYGKEEEAIRCIQVHGFILDGKALKAC........................................................................................................................................................................................................................................................................................................................................................................................ 191
21 -19.300[R] KOG0226 RNA-binding proteins  ali follow..  14  204.................................RVFCGDLGNEVSDELLAKAFRKYPSFQKAKVVRESRT--NKSKGYGFVSFRDSEDYVRAMEMDGKYVGNRPIKLRKSAWKERNIDV............................................................................................................................................................................................................................................................................................................................................................................. 288
22 -19.200[A] KOG4206 Spliceosomal protein snRNP-U1A/U2B  ali follow..  15  2........................LTADIPPNQSIYIQNLNERIKKEELKRLFSQFGRILDVVALKTPK-----LRGQAWVTFSEVTAAGHAVQMQNFPFYDKPMRLQYAKA.................................................................................................................................................................................................................................................................................................................................................................................... 89
23 -19.200[K] KOG4661 Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B)  ali follow..  10  406................................RNFWVSGLSSTTRATDLKNLFSKYGKVVGAKVV---NARSPGARCYGFVTMSTAEEATKCINLHKTELHGKMISV-------------------------------------------------------------------------------------------------EKAKNEPVGKKTSDKRDSDGKKEKSSNSDRSTNLKRDDKCDRKDDAKKGDDGSGEKSKDQDDQKPGPSERSRATKSGSRGTERTVVMDKSKGVPVISVKTSGSKERASKSQDRKSASREKRSVVSFDKVKEPRKSRDSESHSRVRERSEREQRMQAQWEREERERLEIARERLAFQRQRLERERMERERLERERMHVEHERRREQERIHREREELRRQQELRYEQERRPAVRRPYDLDRRDDAYWPEAKRAGLDERYHSDFNRQERFHDFDHRDRGRYPD 759
24 -19.100[J] KOG0122 Translation initiation factor 3, subunit g (eIF-3g)  ali follow..  24  214.................................SVRVTNLSEDTREPDLMELFHPFGAVTRVYVAI--DQKTGVSRGFGFVNFVSREDAQRAINLNGYGYDNLILRV......................................................................................................................................................................................................................................................................................................................................................................................... 286
25 -18.900[A] KOG2217 U4/U6.U5 snRNP associated protein  ali follow..  3...................................................................................................................................................................................................................SSSSGKKHKKDKKNRHRSRSSERPRRVTEDEDVTLDLTDDSSSRHRHHKHKKHKEHRHKHHKQKERERANEVISLEESDSDSSDCVEVPVQAQVQAQAKLRDARESSNRDKERDSGRDRELLRERERERDRERERDRDREKEREREREKERLREREREREREKERIREREKERLRERERERERERVRELTAPPPPQISKHAEYESRREREIERERDARKRSGRERERERNRERSRSQSPASSSRKPATKEREPSSRSFSPIPENGAGDVLSIT 276
26 -18.900[S] KOG4610 Uncharacterized conserved protein  ali follow..  14  307..........................................................................................................................................................................................................................................................................QLYRLYVVNAEFWKNRRESRMAKSRQFQSRRKVQDADQNSIYMISNERGGDVKKKIKRAKDKDYAEQEAVYSKKKKDKKDKKKRKRKDTGYSTASSQNLYSTKASGTDKDTRRKDKKGKKSKRTCSSSPSDCDLAKKQKRKNADKNDKKKSRKIEAVVEESSSSSSSSSDSSNSTLPSYEVIDEKKARRRKHRGSSSDTSSGDSSSSSSSSSSSDSS. 523
27 -18.500[R] KOG0149 Predicted RNA-binding protein SEB4 (RRM superfamily)  ali follow..  20  1.........MAYQPVPGSGFHYLNSPFGDTTFTKVFVGGLAWETQSETLRQHFEQYGEILEAVVI---DKNTGRSKGYGFVTFRDPEAARRACADPTPIIDGRRANCNLASLGRPRPPLPY........................................................................................................................................................................................................................................................................................................................................................................... 110
28 -18.200[R] KOG0125 Ataxin 2-binding protein (RRM superfamily)  ali follow..  17  79QNGSLTTEGGAQTDGQQSQTQSSENSESKSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG----SKGFGFVTFENSADADRARELHGTVVEGRKIEVNNATARVMTNKKMVTP......................................................................................................................................................................................................................................................................................................................................................................... 199
29 -18.000[T] KOG1882 Transcriptional regulator SNIP1, contains FHA domain  ali follow..  12  2...........................................................................................................................................................................................................................................................................KAVKSERERGSRRRHRDGDVVLPAGVVVKQERLSPEVAPPAHRRPDHSGGSPSPPTSEPARSGHRGNRARGVSRSPPKKKNKASGRRSKSPRSKRNRSPHHSTVKVKQEREDHPRRGREDRQHREPSEQEHRRARNSDRDRHRGHSHQRRTSNERPGSGQGQGRDRDTQNLQAQEEEREFYNARRREHRQRNDVGGGGSESQELVPRPGGNNKEKEV 218
30 -17.800[R] KOG2140 Uncharacterized conserved protein  ali follow..  15  641........................................................................................................................................................................................................................DELREHLKNTPKVIVAQKPDVEQNKSSPSSSSSASSSSESDSSDSDSDSSDSSSESSSEESDSSSISSHSSASANDVRKKGHGKTRSKEVDKLIRNQQTNDRKQKERRQEHGHQETRTERERRSEKHRDQNSSGSNWRDPITKYTSDKDVPSERNNYSRVANDRDQEMHIDLENKHGDPKKKRGERRNSFSENEKHTHRIKDSENFRRKDRSKSKEMNRKHSGSRSDEDRYQNGAERRWEKSSRYSEQSRESKKNQDRRREKSPAKQK 908
31 -17.800[Z] KOG3809 Microtubule-binding protein MIP-T3  ali follow..  12  116..........................................................................................................................................................................................................................................LNKLSSDDAVRRVLAGEKGEVKGRASLTSRSQELDNKNVREEESRVHKNTEDRGDAEIKERSTSRDRKQKEELKEDRKPREKDKDKEKAKENGGNRHREGERERAKARARPDNERQKDRGNRERDRDSERKKETERKSEGGKEKERLRDRDRERDRDKGKDRDRRRVKNGEHSWDLDREKNREHDKPEKKSASSGEMSKKLSDGTFKDSKAETETEISTRASKSLTTKTSKRRSKNSVEGRKEDNISAKS 365
32 -17.500[A] KOG0105 Alternative splicing factor ASF/SF2 (RRM superfamily)  ali follow..  26  2....................SGWADERGGEGDGRIYVGNLPTDVREKDLEDLFYKYGRIREIELKNRHG-----LVPFAFVRFEDPRDAEDAIYRNGYDYGQCRLRVE........................................................................................................................................................................................................................................................................................................................................................................................ 85
33 -17.400[A] KOG2253 U1 snRNP complex, subunit SNU71 and related PWI-motif proteins  ali follow..  16  52...........................................................................................................................................................................................................................LKLLPLLMNTNEIAIDAAAVAQGAEKELHDDREAKNRPEASKRSRRSRSSSNSSSESDSSSSRSSSYSSRSRSRTPQRSRTSKRRRSNSHASEDSDDAREKRAFKQMMLDKKQAYLARLKRWESRERQMSKRYEREERKEKDRKKTLQKEGKRLKLFLEDYDDEKDDPKYYTSSQFFQRKRDYEREREADQKDRMQEQQEIEELKRQIMEEAANDESINIEEEARKRHKLKEEEAMRKMRADSGSPNPHQPLGQSANGEKSSSEE 316
34 -17.400[A] KOG0106 Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily)  ali follow..  21  3.................................RVYIGRLPNRASDRDVEHFFRGYGKLSDVIM----------KNGFGFVDFQDQRDADDAVHLNGKELCGERVILE........................................................................................................................................................................................................................................................................................................................................................................................ 68
35 -17.300[R] COG0724 RNA-binding proteins (RRM domain)  ali follow..  18  192.................................TLKIMQVNENADENSLRELLFPFAPIPRVSVVRNKET--GKSRGLAFVTFSSEEVAEQALRLDGRGYMNLILRV......................................................................................................................................................................................................................................................................................................................................................................................... 265
36 -16.700[A] KOG0533 RRM motif-containing protein  ali follow..  12  76..................................VNISNLAPTVISSDLEELFGDYR-LSSVSVNFNEH---GDSLGTGDISLTKRDAERLVQKFSGVALDGKIMKFA........................................................................................................................................................................................................................................................................................................................................................................................ 145
37 -16.600[K] KOG3794 CBF1-interacting corepressor CIR and related proteins  ali follow..  13  352.................................................................................................................................................................................ESSTGSEDSREKRGSKKRKKLKKKSKKQYDSDSLSFEGSGSDSYRLSRRRHTKHVDPSASLKSEVYHQGNSHREKHYYDEKHQKRKEIVDRPSASSDDSDYYRSNSSRKKRSEDDYKSHHRERKQVHSNDPVSEKSQKQHYSESGKIQRVEKEHRYDERRHRYVDMESENRNRSEKKPRYDDRDSEKHHRSVKGKEKHVYEASDDPEEFSDRYRSTKKTESDSESNRRSRKKKHELSSEEEEGESRVIGEQVRKSMSLIHRRLYRISGLSSVNAWNLQIREAVNRNDPVESLLLFREMKRGGFEPNN 658
38 -16.400[R] KOG0431 Auxilin-like protein and related proteins containing DnaJ domain  ali follow..  402...............................................................................................................................................................................................................SHVPSSGRASVNSPTASQMDELDDFSIGRNQTAANGYPDPSSGEDSDVFSTAAASAAAMKDAMDKAEAKFRHAKERREKENLKASRSREGDHTENYDSRERELREKQVRLDRERAEREAEMEKAQEREKEEREREQKRIERERERLVARQAVERATREARERAATEAHAKVQRAAVGKATDARERAERAAVQRAHAEARERAAAGARDKAAKAAAEAREKAEKAAAEAKERANAEAREKETRVRAERAAVERAAAEARGRAAAQAKAKQQQENTND. 677
39 -16.200[S] KOG4051 Uncharacterized conserved protein  ali follow..  152..................................................................................................................................................................................................................RVEDMNEKDSTIPKESPSTDLKNDNNKQEKNATIKVKELPEYHTEENDSPIDVQKEPIKEVQSDEKELQREHMSEEEQKMKSTNKTAAPVRKSQRLKRSKEVKFEDEEKEEIEEDNTKDEEQKEKKEEIQEPKITHNEEVDKEKNENEEGDDEREKSTSYENTNGSESEGVDEGVDEELGYESEREAEGKGKQIESEGGNLKKKTENKKGDDQQDDTKKDSKDKNEPLAKRTRHSSSTGNTSNETSPKRKRRKAGSRKNSPPATRVSSRLRNKK 425
40 -16.100[K] COG5164 Transcription elongation factor  ali follow..  2......................................................................................................................................................................................................................SDNSDTNVSMQDHDQQFADPVVVPQSTDTKDENTSDKDTVDSGNVTTTESTERAESTSNIPPLDGEEKEAKSEPQQPEDNAETAATEQVSSSNGPATDDAQATLNTDSSEANEIVKKEEGSDERKRPREEDTKNSDGDTKDEGDNKDEDDDEDDDDDDDDEDDDDEAPTKRRRQERNRFLDIEAEVSDDEDEDEDEEDSELVREGFITHGDDEDDEASAPGARRDDRLHRQLDQDLNKTSEEDAQRLAKELRERYGRSSSKQYRAAAQDG 271
41 -16.000[R] KOG2295 C2H2 Zn-finger protein  ali follow..  240....................................................................................................................................................................................................................GSVKVDSSQADALIRVLDTCVIKLEGGTDEDLKVLDEKPKDPVVYERKAEQMQSVKEVEKTINSPKEEMSEADPVSTQRKPVRPVNSDGENWDDDDAENSAPKKELAEDSKDSDSKPEDKQLNKKKTKKRKRNSSDDDSSSSESSSSSDEEKLKEKYDVEDGLRAEQKTEAEKDRQEATKAKQGPQSPKLDEDEGNENTEPKGLDSKINTYEEIDNTLKSPEISSNPIKNTDNGDGSKVEEDGEKPSVGKDKVVETETIDLDKVKDGQPRA. 510
42 -16.000[O] KOG0314 Predicted E3 ubiquitin ligase  ali follow..  507........................................................................................................................................................................................................................................................GREEFEAKKTEMKRKRENEIRRSEGGNVVRDSEKSRIMNNSAVTSSPVKPKSRQGPPPPISSDYDRRRRSDRSSPERQSSRRFTSPPRSSSRKSERDRHHDLDSEHDRRRDRPRETDRKHRKRSEKSSSDPTVEIDDNNKSNVFTRISFPEESSGKQRKTSKSSPAPPESSVAPVSSGRRHHSRREREMVEYDSSDDEDRHFKRKPSRYKRSPSVAPSDAGDEHFRHSKRSKGERA 742
43 -15.700[S] KOG3869 Uncharacterized conserved protein  ali follow..  11  191..............................................................................................................................................................................................................QKAAEGKKKNKKNKKSKKSKKKKKNRRSSNEESSDSESNDSDDDLDRKLARQVSKLKGDQGDLKLDKLLDAKYRTISNQLDMATKKKKSKKSKKKKSSDSSDESSDEEEEPRRKHKRSHSSEDRNQRERRRSRSPRDRKKRQSRSPEQRQRQRSPEERRERRRSRSRSPLARRQRRTRSPEDRKARRQSKDTSKQREKRRSRTPEERSRSKRSRSRSSKGDDKRRIAERPPPSRPTGKPKLSEADREARLREMMDNATWREADRSQVVRKHREAYARE 468
44 -15.500[A] KOG1190 Polypyrimidine tract-binding protein  ali follow..  10  40.............NGNDSKKFKGDSRSAGVPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG--------KNQAFIEMNTEEAANTMVNYYTSVLRGQPIYIQFSNHKELKTDSSPNQ......................................................................................................................................................................................................................................................................................................................................................................... 144
45 -15.200[A] KOG0120 Splicing factor U2AF, large subunit (RRM superfamily)  ali follow..  12  75..............DTPQTAVPVVGSTITRQARRLYVGNIPFGVTEEEMMEFFNQQMHLVGLAQAAGSACQINLDKNFAFLEFRSIDETTQAMAFDGINLKGQSLKI......................................................................................................................................................................................................................................................................................................................................................................................... 170
46 -15.100[A] KOG4212 RNA-binding protein hnRNP-M  ali follow..  15  185.............NNPNIPNEIIHALQAGRLGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKD---GKSRGIGTVTFEQSIEAVQAISFNGQLLFDRPMHVKMDERALPKGDF............................................................................................................................................................................................................................................................................................................................................................................. 288
47 -14.800[R] KOG0153 Predicted RNA-binding protein (RRM superfamily)  ali follow..  16  223.........................PPEDRNITTLYVGNLPEEITEPELRDQFYQFGEIRSIALVPR--------QQCAFVQYTKRNAAELAAEFNKLVIQGRKVSIKWAHSQAKQGTAAKTD......................................................................................................................................................................................................................................................................................................................................................................... 314
48 -14.600[K] KOG3152 TBP-binding protein, activator of basal transcription (contains rrm motif)  ali follow..  14  51.................................VCYLSRIPPHMDHVRLRHILAQYGELGRIYLAPEADTFVY-RFSEGWVEFAKKSVAKRVADLNGEQIGGKKKSS......................................................................................................................................................................................................................................................................................................................................................................................... 144
49 -14.500[D] KOG2186 Cell growth-regulating nucleolar protein  ali follow..  20  408................................RNIFVRGFGWDTTQENLKTAFESYGEIEECSVV---DKDTGRGKGYGFVMFKTRKGAREALKRPEKRMYNRIVVC......................................................................................................................................................................................................................................................................................................................................................................................... 480
50 -14.400[K] KOG1548 Transcription elongation factor TAT-SF1  ali follow..  12  110................................KAVYIQGLPLDVTVDEIEEVFKKCGVIAKIKIYRTED---GTPKGDALIVFFRSESVELAEQFDDTEFRYGSGQK......................................................................................................................................................................................................................................................................................................................................................................................... 190
51 -14.400[Z] KOG1425 Microfibrillar-associated protein MFAP1  ali follow..  42..............................................................................................................................................................................................................AEEDDDVRMQKFSVLDRAFPKNDDLGVARKDDPRLRRLAQTKVENRDEVRADHRRIRQAEIISTEEEESRNQENRDEDDDEDALEERRRRIKEKNLRRAQEEAALLPLEEEDEIQEEEEEEEESEYETDSEDDMPGIALIKPVFVPKAERDTIAERERLEAEEEALEELAKRKLEQRKIETKQIVVEEVRKDEEIRKNILLEEANIGDVETDDELNEAEEYEVWKTREIGRIKRERDAREAMLREREEIEKLRNMTEQERRDWERKNPKPSSAQPKKK 319
52 -14.400[K] KOG3915 Transcription regulator dachshund, contains SKI/SNO domain  ali follow..  433.....................................................................................................................................................................................................................KERVPDSPSPAPSLEEGRRPGSHPSSHRSSSVSSSPARTESSSDRIPVHQNGLSMNQMLMGLSPNVLPGPKEGDLAGHDMGHESKRMHIEKDETPLSTPTARDSLDKLSLTGHGQPLPPGFPSPFLFPDGLSSIETLLTNIQGLLKVAIDNARAQEKQVQLEKTELKMDFLRERELRETLEKQLAMEQKNRAIVQKRLKKEKKAKRKLQEALEFETKRREQAEQTLKQAASTDSLRVLNDSLTPEIEADRSGGRTDAERTIQDGRLYLKTT 703
53 -14.400[M] COG3064 Membrane protein involved in colicin uptake  ali follow..  32.............................................................................................................................................................................................................................................SSFDEHIEASAGGGGGSAIDAVMVDPGAVVQQYNRQQDQQASARRAEEERKKLQQQQAEELQQKQAAEQERLKQLEKERLAAQEQQKQAEEAAKLAQQQQQQAEEAAKAAADAKKKAEAEAAKAAADAKKKAEAEAVKAAADAKKKAEAEAAKAAADAKKKAEAEAAKAAAEAKKKAEAEAAKAAAEAKKKADAEAAKAAAEAKKKADAAAAKAAAEAKKKADAAAAKAAADAKKKAAAEKAAAAEG 278
54 -14.300[TR] KOG4019 Calcineurin-mediated signaling pathway inhibitor DSCR1  ali follow..  17  2.......................EEVDLQDLPSATIACHLDPRVCRAKFESLFRTYDKDITFQYFK--------SFKRVRINFSNPFSAADARLLHKTEFLGKEMKL......................................................................................................................................................................................................................................................................................................................................................................................... 83
55 -14.200[J] KOG2147 Nucleolar protein involved in 40S ribosome biogenesis  ali follow..  41...............................................................................................................................................................................SRKRAHEQREQTLGVEYDRKNKISKIVDKRLGEKDGKSEEEKGAMRFTEERVKNYKRASKFNLTDDGDEEEEVLTHKGKALSDIEKYDKSMISDSDDDEEPGNLGSNMVKVAHFGGGEKTAEEHVREKISREDMISNLIAKTKLARHEKQQQKDELELMTESLDSKYQALMGKMKASFRPTGRQPLEKDDYDKLTITLKTEADARATPADRKLSEEEEALKEKERLETLEAAPDADVDIDAGSKADARKVQAKNSRFEVKFDDEGGLIDEDTVEKSRILKKNLDGSDESDDDEDLEDEEEDLDDLLEDE 349
56 -14.200[A] KOG0145 RNA-binding protein ELAV/HU (RRM superfamily)  ali follow..  24  298.................................CIFVYNLSPDSDESVLWQLFGPFGAVNNVKVIR--DFNTNKCKGFGFVTMTNYDEAAMAIALNGYRLGDRVLQVSFKTNKAHKS............................................................................................................................................................................................................................................................................................................................................................................... 380
57 -14.100[A] KOG4213 RNA-binding protein La  ali follow..  11  111................................RSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKA---FKGSIFVVFDSIESAKKFVETPGQKYKETDLLI......................................................................................................................................................................................................................................................................................................................................................................................... 182
58 -14.000[A] KOG2202 U2 snRNP splicing factor, small subunit, and related proteins  ali follow..  17  81............................................FFEDLFEELGKFGEIESLNICDNLA---DHMIGNVYVQFKEEDQAAAALQLQGRFYSGRPIIAD---------------------------------------------------------------SPVTDFREATCRQYEENNCNRGGYCNFMHVKLVSRELRRKLFGRYRRSYRRGSRSRSRSRSISPRNKRDNDRRDPSHREFSHRDRDREFYRHGSGKRSSERSERQERDGSRGRRQASPKRGGSPGGGREGSEERRARIEQWNREREEKEEGGA................................................................................................................................................................ 296
59 -13.900[R] KOG2507 Ubiquitin regulatory protein UBXD2, contains UAS and UBX domains  ali follow..  126..................................................................................................................................................................................................................SSSCAKTLDPNEVRSFAGADGSSSTGESQVVQTASENFRDPETTSVSNSPTGGVEEAKTNPPNSPVAASLASIPAAVSTSSLEGKSGSEAEAASPTALAAEKRAAASKVEGSATTSGAAARNFATNNLIPAVPLMTPAVPVPTQRPLEAQDNTESEERLAEVRNILEQKRKERVEEEKRMEKENELRRRRDGREAQSQQARAKEQELKNMQEQIKRERQEELAARERIRAQIAADRAEQAQRFNTPDISSTTNSVAATAASNVITTDASVSSVD 399
60 -13.600[A] KOG2412 Nuclear-export-signal (NES)-containing protein/polyadenylated-RNA export factor  ali follow..  2.......................................................................................................................................................................................RFVFDEVFNSDTDSPEFEETCSTTSSTSSQCPTPEPSPAIKLPSFTKVGTKKLVNESVVILDPALENALRDLNLQSKLIPINEPIVAASSIIVPHSTNMPLPRASHSSLLDNAKNSNATAPLLEAIEESFQRKMQNLVLANQKEIQSIRENKRRVEEQRKRKEEEERKRKEAEEKAKREQELLRQKKDEEERKRKEAEAKLAQQKQEEERKKIEEQNEKERQLKKEHEAKLLQQKDKLGKAVTNFDKISKMFWHYKDKIAQIKQDIVLPIKKADVNVRNLLSRHKRKINPKFGQLTNSNQQ 302
61 -13.600[T] KOG0116 RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains  ali follow..  13  258.............PAPVSEHSSAATIDQQAEGYTIFVANLLMDATPEQLNETFKGFGAITKDGIQVRSYR--LKGNCFGFVTFASAEAVKLVLQ-SAIRIGNRRVSIEEKRG.................................................................................................................................................................................................................................................................................................................................................................................... 357
62 -13.500[AJ] KOG0148 Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily)  ali follow..  14  66MNGRKIMGKEV---KVNWATTPSSQKKDTSNHFHVFVGDLSPQITTEDIKAAFAPFGRISDARVVK--DMATGKSKGYGFVSFFNKWDAENAIQMGGQWLGGRQIRTNWATRKPPAPKSTYESNTKQ..................................................................................................................................................................................................................................................................................................................................................................... 188
63 -13.400[S] KOG2889 Predicted PRP38-like splicing factor  ali follow..  12  167.........................................................................................................................................................................................................................................................................................KRWALEEVDMLPSYKSLLDGDLVAMSDSDSEEEEVTKKEKPRLTSRRRSRSRDRERDVGDRREVREREKLKERRERGDDEPGPSSSGSGRRDDRDDRRRDRDRSRDRDRRDRRDDDRRDKKKESRRGGADNDEEREIAEANALRAKLGLAPLER................................................. 320
64 -13.400[A] KOG0144 RNA-binding protein CUGBP1/BRUNO (RRM superfamily)  ali follow..  19  3...................GTLDHPDQPDLDAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNLHNMKVLPGMHHPIQMKPADSEKNNAVED......................................................................................................................................................................................................................................................................................................................................................................... 107
65 -13.300[K] KOG0147 Transcriptional coactivator CAPER (RRM superfamily)  ali follow..  15  140......................DNLSPEERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNS--RRSKGIAYVEFCEIQSVPLAIGLTGQRLLGVPIIVQASQA.................................................................................................................................................................................................................................................................................................................................................................................... 227
66 -13.100[K] KOG4210 Nuclear localization sequence binding protein  ali follow..  13  207LNGRNMLIKDSENYSGRPDKDDLVAMSKNPPSRILFVGNLSFDVTDDLLRKHFQHCGDIVKIRMATFEDS--GKCKGFAFIDFKNEEGSTNELKKSCRKIAGRPLRM......................................................................................................................................................................................................................................................................................................................................................................................... 312
67 -13.000[K] COG5296 Transcription factor involved in TATA site selection and in elongation by RNA polymerase II  ali follow..  14...........................................................................................................................................................................................................................................................................................IDDSDVASNRKRAHDDLDDVLSSSSDEDNNENVGQDYAEESGGEGNEKSEDEFEEKFKNPYRLEGKFKDEADRAKIMAMTEIERESILFEREEEISKLMERRELAIRLHQQNAQYMAQSTRRSTRDKPLTSAAAGKRDKLTELKKRRQERSARSVSERTRKRSPVSDYEEQNESEKSEEEEGYSPSYAEEKVEQVSKDNA. 213
68 -13.000[K] KOG2402 Paf1/RNA polymerase II complex, RTF1 component (involved in regulation of TATA box-binding protein)  ali follow..  14...........................................................................................................................................................................................................................................................................................IDDSDVASNRKRAHDDLDDVLSSSSDEDNNENVGQDYAEESGGEGNEKSEDEFEEKFKNPYRLEGKFKDEADRAKIMAMTEIERESILFEREEEISKLMERRELAIRLHQQNAQYMAQSTRRSTRDKPLTSAAAGKRDKLTELKKRRQERSARSVSERTRKRSPVSDYEEQNESEKSEEEEGYSPSYAEEKVEQVSKDNA. 213
69 -12.900[G] COG4282 Protein involved in beta-1,3-glucan synthesis  ali follow..  340...............................................................................................................................................................................................................................................................................................................................KYRARKAERRKFKKRDGKRTTRPIPKSIAKEDVTNSANSTAPSTGTTVLDDGLDNNYEDIPLYGPSKDEELIKKEELEADTDLGLINTSEINQPANLPDEPTAETSNPVSATTVEAVTTTADNKDEEKNDHVTEDVSQNSTIAEASSLQAQEEEKEIETTSVKQE 504
70 -12.900[A] KOG4211 Splicing factor hnRNP-F and related RNA-binding proteins  ali follow..  17  4.........................GTEGGEGFVVKVRGLPWSCSADEVQRFFSDCKIQNGAQGIRFIYTREGRPSGEAFVELESEDEVKLALKKDRETMGHRYVEVFKSNN.................................................................................................................................................................................................................................................................................................................................................................................... 90
71 -12.800[R] KOG2891 Surface glycoprotein  ali follow..  11  224.........................................................................................................................................................................................................................................................QFEEYSSFVRAMDEFRGNKLVRKFVDKTQAINICVSFDKQKHLSDSNIQRRERIRKKFIAKAKAEDEEREKLKKQQEEELDRERQKQEELKKAEAEKQREREERRKEKHMKKIQERGQVEISQKIRIEERKLMIAQRKLESIRTLEKLFERIQLKQRDKNRRVKQDDDKDIQRGRLVEKYKAATEKLVCDQRKIVQEIKSNTPLLGLLKSKSKKSAVPVDASSEDEAAASKRHK. 457
72 -12.700[R] KOG2888 Putative RNA binding protein  ali follow..  203.......................................................................................................................................................................................................................................................QKQIEKRIEQYCREQGVTVHQLSTGRSTAGTGGGPGAAGQDADYQDYPEGGVERGSGGRGGGQAGSRSNAYPQPNNYRNDYDERDYYAAASGSSYGRGRGGYEDYPPAPLPPQMPYGERERERDRDRDKNKDYDRHRSKHKKKHNHRQSSRSRSRSRSRSRHRSERHERKRDGGGYERSSKSRHNEHYEERERRHR......................................... 398
73 -12.500[K] KOG2393 Transcription initiation factor IIF, large subunit (RAP74)  ali follow..  10  172........................................................................................................................................................................................................................EEAEEKMKNRRKTADGYQRWMMKAANNGPALFGEVDNEKESGGTSGGGGRGRKKSSGGDEEEGNVSDRGDEDEEEEASRKSRLGLNRKSNDDDDEEGPRGGDLDMDDDDIEKGDDWEHEEIFTDDDEAVGNDPEEREDLLAPEIPAPPEIKQDEDDEENEEEEGGLSKSGKELKKLLGKANGLDESDEDDDDDSDDEEETNYGTVTNSKQKEAAKEEPVDNAPAKPAPSGPPRGTPPAKPSKGKRKLNDGDSKKPSSSVQKKVKTEND 439
74 -12.400[A] KOG0131 Splicing factor 3b, subunit 4  ali follow..  14  14.....................LGQHSAERNQDATVYVGGLDAQLSEELLWELFVQAGPVVNVYVPK--DRVTNLHQNYGFIEYRSEEDADYAIKLNMIKLHGKPIRVNKASQDKKSLDVGAN.......................................................................................................................................................................................................................................................................................................................................................................... 113
75 -12.300[K] KOG2478 Putative RNA polymerase II regulator  ali follow..  264...................................................................................................................................................................................................................VEETLKKRKRDQEEEMDYAPDDVYDYKIAREYNWNVKNKASKGYEENYFFIFREGDGVYYNELETRVRLSKRRAKAGVQSGTNALLVVKHRDMNEKELEAQEARKAQLENHEPEEEEEEEMETEEKEAGGSDEEQEKGSSSEKEGSEDEHSGSESEREEGDRDEASDKSGSGEDESSEDEARAARDKEEIFGSDADSEDDADSDDEDRGQAQGGSDNDSDSGSNGGGQRSRSHSRSASPFPSGSEHSAQEDGSEAAASDSSEADSDSD..... 531

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Selected papers from Godzik Lab
Ying Zhang, Ines Thiele, Dana Weekes, Zhanwen Li, Lukasz Jaroszewski, Krzysztof Ginalski, Ashley Deacon, John Wooley, Scott Lesley, Ian Wilson, Bernhard Palsson, Andrei Osterman, Adam Godzik. Three-Dimensional Structural View of the Central Metabolic Network of Thermotoga maritima. Science. 2009 Sep 18;325(5947):1544-9.

Alexey M. Eroshkin, Andrew LeBlanc, Dana Weekes, Kai Post, Zhanwen Li, Akhil Rajput, Sal T. Butera, Dennis R. Burton, Adam Godzik. bNAber: database of broadly neutralizing HIV antibodies. Nucl. Acids Res. 2013; published on November 7, 2013.

Plewczynski D, Rychlewski L, Ye Y, Jaroszewski L, Godzik A. Integrated web service for improving alignment quality based on segments comparison. BMC Bioinformatics. 2004 Jul 22;5(1):98.