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Query: [K] KOG2181 LIM domain binding protein LDB1/NLI/CLIM, from COG1018

Results of FFAS03 search in PDB1018
Master-slave alignment(slide right to see more) 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 MCVVIFLKFLFSDNGNNQHGTEAAFGRLAQSYRIQDLLFIIVIFFRAIHIMMFHRPPSARPPLNHVDQLKSLQATALGKPGMRSQATEPQPIGNTVSPLEFRIHDMNRRLYIFSSTGVSENDQQQWWDAFSHEFFDDDCKLWFVIGSEPVAFASRERYIINRQFIPKFFRSIFDSGMRELQYVLRGPSRECTLANGSQAYENENVLQITRYDQSSQFEVNTEGKLYVEFAPFDEVMNYRIKAWTLELKRSNEFVYNQNTADYRVEAQNPEQENKPRMGFFKSTFNLMTMLKILDPMQSIMSSAKSAPAITPREVMKRTLFQHHQVRQQNMRQQQLNQQMMIPAPEPEKPKPARKRQRKPAANPRGSKKATAAAAAAAAAATNGVPPTVPTASPANNQQFPPNPMTSQFQQMSYPDVMVVGEPSMMGSEFGENDERTISRVENSQYDPNAMQMQSLGQGPNSSMNINGRNMMNQHHPGMQPPPGQQHMPPHSMGSQMPTSMHNPMHMPPGSMQGHGGMPPMPSTMANQMPPPNLPPHTMSNQMPNSRMPPMQGQMPPSGMPGQMSNPNMMGSGMPPMSMSSQMPGSMSNPMPNQMPGGMQMNQMPPPNYSQYTGGPPPQWPPPNSAMITGLast
1 -13.8005ife_C mol:protein length:1304 Splicing factor 3B subunit 1  ali model follow..  8  10.................................................................................................DIEAQIREIQGKKAALDEAQGVGLDSTGYYD---QEIYGGSD-------------------------------SRFAGYVTSI-----AATELEDDDDDYSSSTSLLGQKKPGYHAPVALLNDIPQS-----EQYDPFAEHRPPK---IADREDEYKKHRRTMIISPERLDPFADGGKTPDPKMNA-------------RTYMDVMREQHLTKEEREIRQQLAEKAKAGELKVVNGAAASQPPSKRKRRWDQTADQTPGATPKKLSSWDQAETPGHTPSLRWDETPGRAKGSETPGATPGSKIWDPTPSHTPAGAATPGRGDTPGHATPGHGGATSSARKNRWDETPKTERDTPGHGSGWAETPRTDRGGDSIGETPTPGASKRKSRWDETPASQMGGSTPVLTPGKTPIGTPAMNMATPTPGHIMSMTPEQLQAWRWEREIDERNRPLSDEELDAMFPEGYKVLPPPAGYVPIRTPARKLTATPTPLGGMTGFHMQTEDRTMKSVNDQPSGNLPFLKPDDIQ......... 473
2 -9.7002r7o_A mol:protein length:1095 RNA-dependent RNA polymerase  ali model follow..  10  6..LILYLSFIYSSNSELEHSKCLENSKNGLSLRIENATLLSILSYS-------------------------------------------------------KYNAVERKLVKYAKGKPLE-------DLTVNELDYENNKMTSELFPT------AEEYT--DSLMDPAILTSLSSNLNAVMFWLEKVAEKLKVYKRRLDLFTIVASTINKYGVPRH-----NAKYRYEYDVMKDKPYYLVTEMLMSVFSHDDYLIAKELIVLSYSNRSTLAKLVSSPMSILVALVDINGTFITNEELELEFSNKYVRAIVPDQTFDELNQMLDNMRK.............................................................................................................................................................................................................................................................................................................. 297
3 -9.2905gjv_A mol:protein length:1873 Voltage-dependent L-type calcium channel subunit alpha-1S  ali model follow..  9 1156AFTIIFLKLL-------------AFK-FGDPWNVFDFLIVIGSIIDVILSEIDTFLASSGGLYCLGGGCGNVDPDESARISSA-RVMRLIKLLSRAEGVRTLLWTFIKSFQAALVDGTQINRNNNFWTNFAYYYF----NLFVAVIMDNFDYLTRDWSILGPHHLDEFKAAEYDPEAKDVVTLLRRIQPPL-----GFGKFCPH-RVACKRLVGMNMPLNSDGTVTFNATLFALVTALKIKT-EGNFEQANEELRAIIKKIWKRTSMKLLDQVIPPIGDDEVTVKFYATFLIQEHFRKFMKRQEEYYGYRPKKDTVQIQAGLRTIEEEAAPEIRRTISGDLTAEEELERAMVEAAMEERIFRRTGGLFGQVDTFLERTNSLPPVMANQRPLQFAEIEMEELESPVFLEDFPQDARTNPLARANTNNANANVAYGNSNHSNNQMFSSVHCEREFPGEAETPAAGRGALSHSHRALGPHSKPCAGKLNGQLVQPGMPINQAPPAPCQQPSTDPPERGQRRTSLTGSLQDEAPQRRSSEGSTPRRPAPATALLIQEA-RGGLDTLAADAGFVTATSQALADACQMEPEEVEVAATERESVQGMASVPGSLSRRSSLGSLDQVQGSQETLIP. 1870
4 -8.8506g1k_A mol:protein length:921 Transient receptor potential cation channel subfamily c member 4a  ali model follow..  7  485.NIFSSLRLISLFTANSHLGPQISLGRM-----LLDILKFLFIYFANGLNQLYFYYENSEGMTCKGIRCERQNNA---ISLYVTNVKADHKFTEFVGATMFGTYNLNMLIAMMNNSQHIADHADIEWK-FARSYFEEGGTL-FNIIAAENVRLNHQYQEVLRNLVKRYVAAMIRDAKTEEGLTEENFKE----------------------------------------------LKQDISSFRYEVIGMMKGNRKSTRANKSDTSASDVSHPEGSLQYSSALKQNSKLHLYDVTTALQQQNSEEAKASLGCLANGSAVVLTEPILKDKARSDFPKDFTDFGLFPKKQNPNKIYSLAEEATESDPDILDWGKEDKPLAGKVEQDVNESKCLMEEDERVLEEQEMEHIASSHEHLEVL.................................................................................................................................................................................................................... 919
5 -8.7205fur_J mol:protein length:677 TRANSCRIPTION INITIATION FACTOR TFIID SUBUNIT 6  ali model follow..  13  18.....SMKVVAESMGIAQIQEETC---LTDSYRIKEIAQDALKFMH-----MGKRQKLTTSDIDYALKLKNVEPLYGFHAQEFIPFRFASGGGRELYFYEEKEVDLSDIINTPLPRVPLDVCLKAHWHELSVEYYKE---ITEACVGSCEAKRAEALQSI-YQMLPRFSTFISEGNLALLIYLMR----KALMDNPTLYLEKYVHELI-----PAVMTCIVSRQLCLRPDVDNRLVAQICKHFSTTTNNIQSRITKTFTKSWVDEKTPWTTRYGSIAGLAELGHDVIKTL-ILPRLQQEGERIRSVLDGPVLSNIDRIGADHVQSLLLKHCAPVLAKLRPPPDNQDAYRAEFGSLGPLLCSQVVKARAQAALQAQQVNRTTLTITQPRPTLTLSQAPQPGPRTPGLLKVPGSIALPVQTLVSARAAAPPQPSPPPTKFIVMSSSSSAPSTQQVLSLSTSAPGSGSTTTSPVTTTVPSVQPIVKLVSTATTAPPSTAPSGPGSVQKYIVVSLPPTGEGKGGPTSHPSPVPPPASSPS------PLSGSALCGGKQEAGDSPPPAPGTPKANGSQPNSGSPQPAP.............................................. 677
6 -8.4504bzj_A mol:protein length:1273 PROTEIN TRANSPORT PROTEIN SEC31  ali model follow..  9  529NSL----AMVIALDSNNEYGSKSSLSRILYSISKREVISKAIQNLYPNDIAQRNE-----------------------------------------------LIKLGDRLKENGHRQDS-DKVASIW---LSEFPDLEDKLK---------KDNKTIYEAHSECLTEFI---------ERFTVFSNFINGSSTINNEQLIA-----KFLEFIN-----TTSTGNFFLNSLPSDNEEVKTEKARVLIASGKSLPAQNPATATTSKAKYTNAKTNKNVPVLPTPGMPSTTSIPSMQAPFYGMTPGASANALPPKPYVPATTTSAPVHTEGKYAPPSQPSMASPFVNKTNSSTRLNSFAPPPNPYATATVPATNVSTTSIPQNTFAPIQPGMPIMGDYNAQSSSIPSQPPINAVSGQTPHLNRKANDGWNDLPLKVKEKPSRAKAVSVAPPNILSTPTPLNGIPANAASTMPPPPLSRAPSSVSMVSPPPLHKNSRVPSLVATSESPRASISNPYAPPQSSQQFPIGTISTANQTSNTAQVASSNPYAPPPQQRVATPLSGGVPPAPLPKASNPYAPTATTQPNGSSYPPTGPYTNNHTMTSPPPVFNKPPTGPPPISMKKRSNKLASIEQ. 1124
7 -8.0606d4h_A mol:protein length:1455 Protein patched homolog 1  ali model follow..  10 1037ACTFLVCAVFLLN---------ELFGMMG--IGIKSAVPVVILIASV---------------------------------------------------------------------------------GIGVEF---TVHVALAFLTAIGDKNRRAVLALEHMFAP-----VLDGAVSTL---------------GVLMLAGSEFDFIVRYFFAVLAILTILGVL-----------------------NGLVLLP---------------------------------LLSFFGPYPEVSPANGLNRLPTPSPEPPPSVVRFAMPPGHTHSGSDSSDSEYSSQTTVSGSEELRHYEAQQGAGGPAHQVIVEATENPVFAHSTVVHPESRHHPPSNPRQQPHLDSGSLPPGRQGQQPRRDPPREGLWPPPYRPRRDAFEISTEGHSGPSNRARWGPRGARSHNPRNPASTAMGSSVPGYCQPITTVTASASVTVAVHPPPVPGPGRNPRGGLCPGYPETDHGLFEDPHVPFHVRCERRDSKVEVIELQDVECEERPRGS....................................................................... 1444
8 -8.0006ez8_A mol:protein length:3138 Huntingtin  ali model follow..  7  1...........................MA---TLEKLMFESLKSFQQQQQQQQQQQQQQQQQPPPPPPPPPPPQLPQPPPQAQPLLPQPQPPPPPPPPPPGPAVAEEPLHRPKKELSATKKDRVNHCLTICEKLLGIAMELFLLCSDDAESD------MVADECLNKVIKALMDSNLPRLQLLYKEIKKNGAPRSLRAALWRQKCRPYLVNLLPCLTRTSKRPEESVQETLAAAVPKI-LKAFIANLKSSSPTIRRTAAGSAVSICQHSRRTQYFYSWLLNVLLGLLQLVQVYELTLHHTQHQDHNVVTGALELLQQLFRTPPPELLQTLTAVGGIGQLTAAKEESGGRSRSGSIVELIAGGGSSCSPVLSRKQKGKVLLGEEEALEDDSESRSDVSSSALTASVKDEISGELAASSGVSTPGSAGHDIITEQPRSQHTLQADSVDLASCDLTSSATDGDEEDILSHSSSQVSAVPSDPAMDLNDGTQASSPISDSSQTTTEGPDSAVTPSDSSEIVLDGTDNQYLGLQIGQPQDEDEEATGILPDEASEAFRNSSMALQQAHLLKNMSHCRQPSDSSVDKFVLRDEATEPGDQENKPCRIKGDIGQSTDDDSAP.............. 676
9 -7.9906agf_A mol:protein length:1879 Sodium channel protein type 4 subunit alpha  ali model follow..  9 1434IFIIIFLKML-------------ALR-FTVGWNIFDFVVVILSIVGLA------------------------------------SDLIQKYFVSPTLFRVIRLARIGRVLRLIRGMSLPALFNIGLLLFLVMFIYSIFGMSNFAYVKKESGIDDMFNFTFGNSII--LFEITTSAGWDGLLNPILNSGPNLENPGTSVKGDCGNPSIGICF---FLIVVNMYIAIILEFNVATEESSEPLETWEKFDPDATQFIAYSRLSDFVDTLQEPLRIAKPNLDLPMVPGDKIHCLDILFALTKEVLGDSGE-----MDALKQTMEEKFMAANPSKVSYEPITTTLKRKHEEVCAIKIQRAYRRHLLQRSMKQASYMYRHSHDGSGDDAPEKEGLLANTMSKMYGHENGNSSSPSPEEKGEAGDAGPTMGLMPISPSDTAWPPAPPPGQTVRPGVKES................................................................................................................................................................................. 1877
10 -7.7303jax_A mol:protein length:974 myosin 2 heavy chain  ali model follow..  15  120FCVVIYKQLIYSEKGKKRH-ADTAYRSMLQDREDQSILCKVIQYLAVV----------------------------ASSHKGKKDTSITQGPSFSYGELEKQLLQANPILEAFGNAKTVKNDNSSRFGKFIRINFDVTGYIV---------GANIETYLLEKSRAERTFHIFYYAGASE-DLLLEGFNNYTFLSNGHVPIP---------QQDDEMFQETLEAMTIMGFTEEEQTSILRVVSSVLQLGNI-VFKKERNTDQASMPDNTAAQKVCHLMGINVTDFRSILTPRIKVGRDVVQKAQTKEQADFAIEALAKAKFER................................................................................................................................................................................................................................................................................................................... 437
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.

Mayya Sedova, Mallika Iyer, Zhanwen Li, Lukasz Jaroszewski, Kai W Post, Thomas Hrabe, Eduard Porta-Pardo, Adam Godzik Cancer3D 2.0:: interactive analysis of 3D patterns of cancer mutations in cancer subsets. Nucleic Acids Research, gky1098 2018; Published on November 8 2018.

Li W, Godzik A. cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences. Bioinformatics. 2006 May 26;