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KOG2548
Query: [A] KOG2548 SWAP mRNA splicing regulator, 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 MWHEARKQERKIRGLIVDYRKRAERRQYFYDKIQADPTQFLQLHGRRSKIYLDPAVAAAGDGAAIMQGQQDNLIDRFDVRAHLDHIPPVNKTNAEGADGDSELTLEERQLNYERYRILAQNDFLNVSEDKFLHQLYLEEQFGANAQLEAERNLAKKKQKTGGATIGYSYEDTGDGATIGPQPFGAASSTVIGGAAAVAKGEKGDGSEESDSDIDMDVSIDIGKLDTSQAHELNACGRNYGMKSNDFFSHLTKDADEADALRIAREEEQEKMLLSGRKSRRERRAQKERRIANRPFSPPSYAAKEDKDKKGGGKGGEKEKEEDSESRSPSPAEAGPEKITYITSFGGEDEMQPHSKITISLTKPGLTLGESCINASSGAAIAAAAASSVSYAQKVKDNLDKLKVMNESSKRNRRRSRSHSRSRSRSATVSRSRSGSRRSGSRRRSRRSRSYHRRSRTRSRRRRRYYSRSRSRSRSRSRSLSRSRSRSRSRSRSGSWKRYKARSPSYKRSRKRYSYSSRSSSGSSYRRRSRSRSPSNRRSRVKKKTTPPPVATVGGYCLNTTTTTTTSTVTAVKMFQQQQQQPPAKATPPMISYPIPARMLNVNQALTATAPVAVQPQVVEPPPPPLKRYYGRKRGNDTSSSSSSGAENSEGSDNEEQQQPQLGKRAEDSDDMELDTASERSHALQPTMSSSSSTGNQTGKYSSATETGSGHPSSGGGGRPNLRERLKRKMQNLLNRQYKADKRAEIEKTERERLQQQEREDEMRELALKLRRRRRELRHKYGTPSSGKLSDSDAESVASESQLAKSSTRRSRSRSESRRRSPPPETQHSRRSSSRTERRRRTRTPSPKYNRRQRSRSRSGSRVERKRRSHSRRRSGSRDRRRSRSRRSQSRRRRQRDRSIERNREREQYRQQHQQQNERLRGRDRDREADYGHGGSGSSNRGRVVISAPPKLKKLVDYLast
1 -269.000[A] KOG2548 SWAP mRNA splicing regulator  ali  100  1MWHEARKQERKIRGLIVDYRKRAERRQYFYDKIQADPTQFLQLHGRRSKIYLDPAVAAAGDGAAIMQGQQDNLIDRFDVRAHLDHIPPVNKTNAEGADGDSELTLEERQLNYERYRILAQNDFLNVSEDKFLHQLYLEEQFGANAQLEAERNLAKKKQKTGGATIGYSYEDTGDGATIGPQPFGAASSTVIGGAAAVAKGEKGDGSEESDSDIDMDVSIDIGKLDTSQAHELNACGRNYGMKSNDFFSHLTKDADEADALRIAREEEQEKMLLSGRKSRRERRAQKERRIANRPFSPPSYAAKEDKDKKGGGKGGEKEKEEDSESRSPSPAEAGPEKITYITSFGGEDEMQPHSKITISLTKPGLTLGESCINASSGAAIAAAAASSVSYAQKVKDNLDKLKVMNESSKRNRRRSRSHSRSRSRSATVSRSRSGSRRSGSRRRSRRSRSYHRRSRTRSRRRRRYYSRSRSRSRSRSRSLSRSRSRSRSRSRSGSWKRYKARSPSYKRSRKRYSYSSRSSSGSSYRRRSRSRSPSNRRSRVKKKTTPPPVATVGGYCLNTTTTTTTSTVTAVKMFQQQQQQPPAKATPPMISYPIPARMLNVNQALTATAPVAVQPQVVEPPPPPLKRYYGRKRGNDTSSSSSSGAENSEGSDNEEQQQPQLGKRAEDSDDMELDTASERSHALQPTMSSSSSTGNQTGKYSSATETGSGHPSSGGGGRPNLRERLKRKMQNLLNRQYKADKRAEIEKTERERLQQQEREDEMRELALKLRRRRRELRHKYGTPSSGKLSDSDAESVASESQLAKSSTRRSRSRSESRRRSPPPETQHSRRSSSRTERRRRTRTPSPKYNRRQRSRSRSGSRVERKRRSHSRRRSGSRDRRRSRSRRSQSRRRRQRDRSIERNREREQYRQQHQQQNERLRGRDRDREADYGHGGSGSSNRGRVVISAPPKLKKLVDY 957
2 -16.700[A] KOG4849 mRNA cleavage factor I subunit/CPSF subunit  ali follow..  20  521..........................................................................................................................................................................................................................................................................................................................................................................................................RRERSRSRERSHRSRQRRERSTSRYRERSRERERDRDRERERDGGRSVRPRKSPEPVVEAAEAPSSKRYYEDRERYRSSDRERR-DRDRDRDRERERDRDRHFTNDGRGLPLDPSNFTSQNPGNIKTGRPKSAAVAGGSMEKPRGQSAWDI............................................................................................................................................................................................................................................................................................................................................................................................................................ 671
3 -11.800[R] KOG4433 Tweety transmembrane/cell surface protein  ali follow..  12  415....................................................................................................................................................................................................................................................................................................................................................................................................................................PASNAPSASISPTAPLSTGTINRTLLHHQQASSGGGSGT------SGGGAGAGGGVGANGHNGVGPYRNGSAGLRQGLASPSSQSSHTSSTATYNNGTTSYHNSHQQHNNHLYSNHYSHSNNHYNNTQHRTN-------PAAGAVAAAVGVVSSGQRSPSPPPVYDLD-----------AFHRTTSNRRRICQDPTMESSSSNTAQQQQQNLQLQQHQQQSNLINQNQSQSTLKNIFASATLPRSTGSSIRSVLSVQTSNAGICRSTGNGLDGDMVDDRDPRDVTNNSFNRFDPKYISIGPKARGQNNNLNIMSVAGGANKCAT-------------------------------LRHRYGGSLKG-VSAVNATPSPAAAPAVHSPNLRS--------------------------KTPSIATVSKDY............................................................................................................. 767
4 -10.200[R] KOG2140 Uncharacterized conserved protein  ali follow..  17  769..........................................................................................................................................................................................................................................................................................................................................................................................................DQNSSGSNWRDPITKYTSDKDVPSERNNYSRVANDRDQEMHIDLENKHGDPKKKRGERRNSFSENEKHTHRIKDSENFRRKDRSKSKEMNRKHSGSRS---DEDRYQNGAERRWEKSSRYSEQSRESKKNQDRRREKSPAKQK.................................................................................................................................................................................................................................................................................................................................................................................................................................... 908
5 -10.200[K] KOG0850 Transcription factor DLX and related proteins with LIM Zn-binding and HOX domains  ali follow..  13  90....................................................................................................................................................................................................................................................................................................................................................................................................................ASYRQYGAYREQPLPAQDPVSVKEEPEAEVRMVNGKPKKVRKPRTIYSSYQLAALQRRQYLALPERAELAAQLGLTQTQVK---------W--FQNRRSKFKKLYKNGEVPLEHSPNNS.................................................................................................................................................................................................................................................................................................................................................................................................................................................. 202
6 -10.200[T] KOG2290 Rhomboid family proteins  ali follow..  11  1...........................................................................................................................................................................................................................................................................................................................................................................................MSEARRDSTSSLQRKKP-----PWLKLDIPSAVPLTAEEPSFLQPLRRQAFLRSVSMPAETAHISSPHHELRRPVLQRQTSITQTIRRGTADWFGVSKDSDSTQKWQRKSIRHCS-QRYGKLKPQVLRELDLPSQDNVSLTSTETPPPLYVGPCQLARGRAFRVADDTAEGLSAPHTPVTPGAASLCSFSSSRSGFHRLPRRRKRESVAKMSFRAAAALMKGRSVRDGTFR----------------RARRRSFTPASFLEEDTTDFPDELDTSFFAREGILHEELSTYPDEVFESPSEAALKDWEKAPEQADLTGGALDRSELERSHLMLPLERGWRKQKEGAAAPQPKVRLRQEVVSTAGPRRGQRIAVPVRKLFAREKRPYGLGMVGRLTNRTYRKRIDSFVKRQIEDMDDAPVGFSQHETVDSVLRNRGVYENVKYVQQENFWIGPSSEALIHLGAKF-SPCMR.............................................................................................................. 480
7 -10.100[R] KOG2030 Predicted RNA-binding protein  ali follow..  433.......................................................................................................................................................................................................................................................................................................................................................................................................KDPEVTVVDVDLALSAWANARRYYDMKRSAAQKEKKTVDASQKALKSAERKTQQTLKEVRTISNIVKARKVFWFEKFYWFISSENYLVIGGRDAQQNEL-----KRYMRPKDIY--------VHAEIQGASSVIIQNPTGEEIPPKT--------LEAGSMAISYSVAWDAKVVTNSYWVTSDQVSKTAPTIRGKKNFLPSCHLTMGLSLLFKLEDSFIERHLGERKVRSLEDDQIDPNVKENEVEHDLLSDNEDADSNINLSEPSSNTEITAFPNTEVKIEHDTGRIIVRSDSVNPEIEETKESEVVLDKILKKTDDEETTIILAGPSRKKQVSAKKTKEDKARAKQEKRGQKGKLKKMKQKYKDQDDEEREIRMMI------------LKSSGKEKPQASADKVVEKSESTKEYVKPEKSAAPKNPVELDDADEVPVGGDVDVLNSLTGQPHEG--------------------PYQ-----QNYKFKVKLTPGTGKRGKAAKLALNIFAKEKSCSAREKDLLKSIKEES-----------------GKVKLSAP-KYHK.... 972
8 -10.100[K] KOG0842 Transcription factor tinman/NKX2-3, contains HOX domain  ali follow..  15  89....................................................................................................................................................................................................................................................................................................................................................................................................................GLAAGAPPQDSSSKSPEPSADESPDNDKETPGGGGDAGKKRKRRVLFSKAQTYELERRRYLSAPEREHLASLIRLTPTQVK---------W--FQNHRYKMKRARAEKGMEVTPLPSPR.................................................................................................................................................................................................................................................................................................................................................................................................................................................. 201
9 -10.100[R] KOG0488 Transcription factor BarH and related HOX domain proteins  ali follow..  10  130.......................................................................................................................................................................................................................................................................................................................................................................................................................SSRRFVKDRFTAAAALTPFTVTRRIGHPYQNRTPPKRKKPRTSFSRVQICELEKRKYLASAERAALAKSLKMTDAQVK---------W--FQNRRTKWRRQTAEEREAERQQASRLMLQLQHDAFQKSLNDSIQPDPLCLHNSS...................................................................................................................................................................................................................................................................................................................................................................................................................... 267
10 -10.000[A] KOG0152 Spliceosomal protein FBP11/Splicing factor PRP40  ali follow..  13  425..........................................................................................................................................................................................................................................................................................................................................................................................QTLKEIVHDKRY-GALRTLGERKQAFNEYLGQRKKVEAEERRRRQKKAREEELSSSLKWSKAMSLFENDQRFKAVDRPRDREDDNYIVELERKEREKAAEEHRQYMADDYIKAGTQWRKIQDR-----EDDDRCSCLEKIDRLIGFEELDLEKEEEELKRVEKEH-------------------------------VRRAERKNRDAFRTLLEEHVAAGILTAKTY---------------------LDYCIELKDLPQYQAVASNTSGSTPKDLFEDVTEELEKQYHEDKSYVKDAMKSRKANFKSAISEDLSTQQISDINLKLIDDLVGRVKEKEEKEARKLQRLAEEFTNLLHTFKEITVASNWEDSKQLVEEESVSQGLFEEYITSLQEKAKEKERK----KEKERDEKEKRKDKDKERREKEREREKEKGKERSKREESDGETAMDVSEGHKDEKRKGKDRDRKHRRRHHNNSDEDVSSDRDDRDESKKSSRKHGNDRKKS--------RKHANSPESESENRHKRQKKESSRRSGNDELEDGEVG............................ 945
11 -9.890[O] KOG0314 Predicted E3 ubiquitin ligase  ali follow..  19  579....................................................................................................................................................................................................................................................................................................................................................................................................................SSPERQSSRRFTSPPRSSSRKSERDRHHDLDSHDRRRDRPRETDRKHRKRSEKSSSDPTVEIDDNNKSNVFTRISFPEESSGKQRKTSKSSPAPPESSVAPVSSGRRHHSRREREMVEYDSSDDEDRHFKRKPSRYKRSPSVAP......................................................................................................................................................................................................................................................................................................................................................................................................................... 723
12 -9.840[R] KOG2714 SETA binding protein SB1 and related proteins, contain BTB/POZ domain  ali follow..  13  386........................................................................................................................................................................................................................................................................................................................................................................................................................................IEIAYGTSSGAVRVGSGPQLFQTFTVHRSPVTKIMLSEKHLVSVCADNNH--RTWTVTRFRGMISTQPGSTPLASFKILSLEETESHGSYSSGNDIGPFGERDDQQ--PITNKLFVRLSSTGKRI------CEIQAVDCTTISSFTVRECEGSSRM--------------PRRYL----------------------------FTGHTNGSIQMWDLTTAMDMVNKSEDKDVGGPTEEELLKLLDQCDLSTSRCATPNISPATSVVQHSHLRESNSSLQLQHHDTTHEAATYGSMRPYRESPLLARARRTESFHSYRDFQTINLNRNVERAVPENGNLGPIQAEVKGATGE------CNISERKSPGVEIKSLRELDSGLEVHKIAEGFSESKKRSSEDENENGFEGGGFLGRKKLASSPSTSDGGTDSPGTASPS--------PTKTTPSPRHKKSDSS----------QEYSL.......................................................... 815
13 -9.760[R] KOG0492 Transcription factor MSH, contains HOX domain  ali follow..  15  117..................................................................................................................................................................................................................................................................................................................................................................................................................................QEPGRYSPPPRHMSPTTCTLRKHKTNRKPRTPFTTSQLLALERKQYLSIAERAEFSSSLNLTETQVK---------W--FQNRSAKAKRLQEAELEKLKMAAKPM.................................................................................................................................................................................................................................................................................................................................................................................................................................................. 215
14 -9.450[A] KOG2217 U4/U6.U5 snRNP associated protein  ali follow..  23  100..........................................................................................................................................................................................................................................................................................................................................................................................................AKLRDARESSNRDKERDSGRDRELLRERERERDRERERDRDREKEREREREKERLREREEREREREKERIREREKERLRERERERERERVRELTAPPPPQISKHAEYESRREREIERERDARKRSGRERERERNRERSRSQSPASSSRKPA............................................................................................................................................................................................................................................................................................................................................................................................................................ 250
15 -9.440[R] KOG2295 C2H2 Zn-finger protein  ali follow..  1...................................................................................................................................................................................................................................................................................................................................................................................................................MGDSDDEYDRKRRDKFR-GERESYRTERRDD--RRPVGGSAGARDEWAERNPFRGGASAG---GGGARHRPDYSDYRGPGARPRYGS--------VRDLPPAKRMRPDWGDGDVRANPRFGGYDPYLMQAWNDHYQSMHSAYSHGGHAPPV---GGGDTLTQPAMLNLKQFLDTQD----------------------ENISDSEVMRKYTEYKTDFKRQQLNEFFVAHKDEEWFKNKYHPEDSVKRSEEQRGFLQRRTDV--GSVKVDSSQADALIRVLDTCVIKLEGGTDEDLKVLDEKPKDPVVYERKAEQMQSVKEVEKTINSPKEEMSEADPVSTQRKPVRPVNSDGENWDDDDAENSAPKKELAEDSKDSDSKPEDKQLNKKKTKKRKRNSSDDDSSSSESSSSSDEEKLKEKYDVEDGLRAEQKTEAEKDRQEATKA-GPQSPKLDEDEGNENTEPKGLDSKINTYEEIDNTLKSPEISSNPIKNTDNGDGSKVEEDGEKPSVGKDKVVETETIDLDKVKDGQPRALHRTSSIFLNLAPSITR.... 528
16 -9.390[R] KOG0151 Predicted splicing regulator, contains RRM, SWAP and RPR domains  ali follow..  18  830............................................................................................................................................................................................................................................................................................................................................................................................LEEQGMKNSEEIERKVAIHRKRLEADGLSGNQRVLPEKREKREDSRDSSRKRNRSESQNRSQSPPQKSLTRERVRDHDLDKDRHRDRDRQQHDLDKDRKRRAKSSSRERDDH---DRSRERDRDWRRRGMR.............................................................................................................................................................................................................................................................................................................................................................................................................................................................. 957
17 -9.220[R] KOG1855 Predicted RNA-binding protein  ali follow..  19  692..........................................................................................................................................................................................................................................................................................................................................................................................................SMQFERTFSNASESSGFYRRPSNIEREPIQTDQLVGGGGGGYQVWPRRYSNNFQQLSSKL-AAYDNAQYIGGRRISTDSGYDRRCSFG-FEGSPRSRTGSFLSNYKHGGGDSRTGSFLDGSPRSRSGSFAQAESLVRTPMGRARKFGQTISP........................................................................................................................................................................................................................................................................................................................................................................................................................... 865
18 -9.140[K] KOG0847 Transcription factor, contains HOX domain  ali follow..  13  157............................................................................................................................................................................................................................................................................................................................................................................................................................................SMQLSPNSLNMQKKQSRPTFTGHQIYQLERKEQTKYLAGADRAQLAQELNMSESQVK---------W--FQNRRTKWRKKEAADNALVKRGASGDKSPCSLSPFLS....................................................................................................................................................................................................................................................................................................................................................................................................................................... 253
19 -9.130[K] KOG0848 Transcription factor Caudal, contains HOX domain  ali follow..  10  150....................................................................................................................................................................................................................................................................................................................................................................................................................TAAAEQLSPGGQRRNLCEWMRKPAQQSLGSQVKTRTKDKYR---VYTDHQRLELEKESRYITIRRKAELAATLGLSERQVK---------W--FQNRRAKERKINKKKLQQQQQQQPPQPPPPPPQPPQPQPGPLRSVPEPLSPVSS...................................................................................................................................................................................................................................................................................................................................................................................................................... 287
20 -9.090[K] KOG0844 Transcription factor EVX1, contains HOX domain  ali follow..  14  144....................................................................................................................................................................................................................................................................................................................................................................................................................SGSEALVGSPNGGSETPKSNGGSGGGGSQGTLACSASDQMRRYRTAFTREQIARLEKENYVSRPRRCELAAALNLPETTIK---------W--FQNRRMKDKRQRLAMTWPHPADPAFYTYMMSHAAAAGG...................................................................................................................................................................................................................................................................................................................................................................................................................................... 268

FFAS is supported by the NIH grant R01-GM087218-01
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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.

Ginalski K, Grishin NV, Godzik A., Rychlewski L. Practical lessons from protein structure prediction. Nucleic Acids Res. 2005 Apr 1;33(6):1874-91.