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

Results of FFAS03 search in COG1018
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 -125.000[K] KOG2181 LIM domain binding protein LDB1/NLI/CLIM  ali  100  1MCVVIFLKFLFSDNGNNQHGTEAAFGRLAQSYRIQDLLFIIVIFFRAIHIMMFHRPPSARPPLNHVDQLKSLQATALGKPGMRSQATEPQPIGNTVSPLEFRIHDMNRRLYIFSSTGVSENDQQQWWDAFSHEFFDDDCKLWFVIGSEPVAFASRERYIINRQFIPKFFRSIFDSGMRELQYVLRGPSRECTLANGSQAYENENVLQITRYDQSSQFEVNTEGKLYVEFAPFDEVMNYRIKAWTLELKRSNEFVYNQNTADYRVEAQNPEQENKPRMGFFKSTFNLMTMLKILDPMQSIMSSAKSAPAITPREVMKRTLFQHHQVRQQNMRQQQLNQQMMIPAPEPEKPKPARKRQRKPAANPRGSKKATAAAAAAAAAATNGVPPTVPTASPANNQQFPPNPMTSQFQQMSYPDVMVVGEPSMMGSEFGENDERTISRVENSQYDPNAMQMQSLGQGPNSSMNINGRNMMNQHHPGMQPPPGQQHMPPHSMGSQMPTSMHNPMHMPPGSMQGHGGMPPMPSTMANQMPPPNLPPHTMSNQMPNSRMPPMQGQMPPSGMPGQMSNPNMMGSGMPPMSMSSQMPGSMSNPMPNQMPGGMQMNQMPPPNYSQYTGGPPPQWPPPNSAMITG 629
2 -13.200[R] KOG2350 Zn-finger protein joined to JAZF1 (predicted suppressor)  ali follow..  9  554...................................................................................................LWLRQKTIQMIDEFSDVNEGEKELMKLWNLHVM-----------------------RHGFVGDCQLPIACEMFLDAKGTEI----------------------------------------VRKNLYRNF-----------------ILHMCSLFDYGLIAAET----------------------VYKTVQKLQGLLSKYAAGQELMQRQREEQLKYWLDVGMHKKQEDPKTLKSPQKPAPPADQASTSSASTSGSGSGSSSMQPPKRMPAHLKRGSAASSPGVQSKGTENGTNGSNSSSSNSKNVAKKSADQPLSTLANTRERRSEYGQKRNVSGSRLAATPASKRKLSSKDVEQAADAPEVLTHSDNAVDVGIIDDECGGFGAVGVMNGVASPVANNSEMDTEAEVEAEPTATKAITIHCQQPVTTPVAAAAT----ANERLPGVAPHRRGPRRADRREEELVASAPGYRCRPSMRGADAGAAAAAAAAPTHPHPHRPPPPPPPQ...................... 955
3 -10.500[R] KOG4368 Predicted RNA binding protein, contains SWAP, RPR and G-patch domains  ali follow..  9  12.....F-SFLF---GGEFYS-----------YKCK-----LALEQQQLICKQQTPELEPAATMPPLPQPPLAPAAPIPPAQGAPSMAVEQQMQKLLEETQLDMNEFDNLLQPIIDTCTKDASAGKNW------MFSNAKS-------------PPHCELMAGHLRNRITGAHFELRLHLIYLI------------NDVLHHCKQARELLAALQKVVVPIYCTSFLAVEEDKQQKIARL-LQLW-----EKNGYFDDSIIQQLQSPALGLGQYQATLINEYSSVVQPVQLAFQQQIQTLKTQHEEFVTSLAQQQQQQQQQQQQLQMPQMEAEVKATPPPPAPPPAPAPAPAIPPTTQPDDSKPPIQMPGSSEYEAPGGVQDPAAAGPRGPGPHDQIPPNKPPWFDQPHPVAPWGQQQPPEQPPYPHHQGGPPHCPPWNNSHEGMWGEQRGDPGWNGQRDAPWNNQPDAAWNSQFEGPWNSQHEQPPWGGGQREPPFRMQRPPHFRGPFPPHQQHPQFNQPPHPHNFNRFPPRFMQDDFPPRHPFERPPYPHRFDYPQGDFPAEMGPPHHHPGHRMPHPGINEHPPWAGPQHPDFGPPPHGFNGQPPHMRRQGPPHINHDDPSLVPNVP.. 614
4 -9.210[A] COG5180 Protein interacting with poly(A)-binding protein  ali follow..  8  64..VTVTVT-----SGVKYTGLTNGID-LRFPRVADSLLIVAELELKNIDLSLDEKWENS-----------KAQETTPARTNIEKERVNGESNEVTKFRTDVDISGSGRKLEKWTPEEGAEHFDIN-WDQFAVN---------------------EKKFGVKSTFDEHLYTTKINKDDPNYSKRLQEAER--------IAKEIESQGTSGN------IHIAEDRGIIIDDSGLDE------DLYSGVDRRGDELLAALKSNSKPNSNKGNRYVPPTLRQ-ISSSNSNKNENAVSTDTSTPAAAGAPEGKPPQKTSKNKKSLSSKEAQIEELKKFSEKFKVPYDIPKDMLEVLKRSSSTLKSNSSLPPKPISKTPSAKTVSPTTQISAGKSESRRSGSNISQGQSSTGHTTRSSTSLRRRNHGSFFGAKNPHTNDAKRVLFGKSFNMFIKSKEAHDEKKKGDDASENMEPFFIEKPYFTAPTWLNTIEESYKTFFPDEDTAIQEAQTRFQQRQLNSMGNAVPGMNPAMGMNMGGMMGFPMGGPSASPNPMMNGFAAGSMGMYMPFQPQPMFYHPSMPQMMPVMGSNGAEEGGGNISPHVPAGFMAAGPGAPMGAFGYPGGIPFQGMM.... 682
5 -8.700[J] COG1530 Ribonucleases G and E  ali follow..  8  419..LII-TEALVAIDVNSGRSTEAA--EVARQLRLRDLAGLIVVDF-----------------------MEEKRNNRAVEKKMKECLKDDRARIQVGRISHFGLLEMSRRIRASVLESTMQVCPH------------------------------------GTGHI----RSD-SSMALHIIRGIEDYLLRHSGFDIHVRTPAASALYVLNHKRQILADLEGRFGVEISIDADESVGHFVIDKGAPSTRPVTPSAVQPMVYEDDIEDPEIPVEEDETEEEARTDVQAGEERSEENDRKRRRRRRRRGGRERDGRDLSAQEEAVSEEASEEDNETDQANEAVSSASMSEEDRRKKRRRGRRGGRKNRREDDNRARRIPDPEFVGYTPVLPVKAEESIGEVVETVETVEAPVVEAAPEEKPEKPARKTRTRKKAVDEAPADEAAAPAEEVVPEKPKRRTRKAAAKPVVEAEDVAEVKETVAAETQVETIAEPKSTEPVVTSSESEDRKPK.......................................................................................................................... 880
6 -8.600[R] KOG4433 Tweety transmembrane/cell surface protein  ali follow..  8  208LCTVLVI------------------GVARRSFSVSGLFCIIICWLLA--------------------------------------------------------------VYLASSVAAGD-------HDYMCRQVGMRSPYVDFLNCGTPRNRFILRLNESRDLVDRYPHIDIQRTLNAMDNDLEITLRNLTTLSA--TLDRRTIDMHYEEALRGLCGGGLLGLSLMMVAGLLTSFLLTIHAWIYLTKRPTLDADKSETAPLFPASNAPSASISPTAPLSTGTIN---------------RTLLHHQQASSGGGSGTLPGSGGGAGAGGGVGANGHNGVGPYRNGSAGLRQGLASPSSQSSHTSSTATYNNGTTSYHNSHQQHNNHLYSNHYSHSNNHYNNTQHRTNPAAGAVAAAVGVVSSGQRSPSPPPVYDLDAFHRTTSNRRRICQDPTMESSSSNTAQQQQQNLQLQQHQQQSNLINQNQSQSTLKNIFASATLPRSTGSSIRSVLSVQTSNAGICRSTGNGLDGDMVDDRDPRDVTNNSFNRFDPKYISIGPKAVRGQNNNLNIMSVAGGANKCATLRHVGRYGGSLKGVSAVNATPSPAAAPAVHSPNLRSAKTPSIATVSK 765
7 -8.520[R] KOG0562 Predicted hydrolase (HIT family)  ali follow..  9  266.....................................................................................................................................LIESDRAVVM----KADYPKSQYHFRV----VAK-ITQLTEAQLPLLDHMMDLANQIIEKQKHL-----SRNFLIGFKVNTFWNRLNLH---VISNDFYSMAMKRI-SHWNFNTE----FMPFQIAYMSVQGSIESISEETYNNLQEKTPLRCNQCEFVTNMLLDLKAHLYQHWQRKEDERDQKKKVDKIIQMISETKLDEAEAKPKLLNEEEPIQAQPVAAIAQYPNEHLGKPLTPQQQPGKQQAQNVYDKNINGPSVNMMNQNNPNNPFRNTPHLNRQSQKPPHPRSGPRGPMAPWTGPRFPCHQQQNRFRPPGFNACRQPYPPYHSGHQQFPNASSVGGGQTGLPGQGQGPRPKWNSNKIFNQQNRQNTVQAQPQAQNQQTNQQQIQNSNKNQTPKKKPWKNRLQPVGKVQNQGGANRDPA--PPSNSKPS.............................................................. 685
8 -8.480[TU] KOG3895 Synaptic vesicle protein Synapsin  ali follow..  9  299....SVLKA-----GHCHGG----VARLENQSALQDAAGLVSG-YCTIEP---------------------------------------------DAKFSVHIQKIGNNYKAFMRKSITGN-----WKTNQGSAMLEQITLT-------------EKYKSWVDEISELF-----GGME-----------------------CGLSVVVAKDGREYIISACDSTFALIGDTQEED-------------RQIADLVSGRMQNVCRPSMAQTGPGKLPS------------------------RSSVSSRAESPTDEGVAPTPPLPAGPRPAPMGGPPPIPERTSPAVGSIGRLSSRSSISEVPEEPSSSGPSTVGGEIANKKRGRTASETSSGSGPGSVPSSAGPGSGFSSSFLGKQFSFAGKGEGVISTQPTQRPSEEPPAIPTTASSAVRPESSVSVSDSRNTDTLTERAGAGYQPVTNYEQQERVNPFDKEPSKSGSAASIHTSSSSSISSSSISSRINRNGNAIQSPPPPAGPPPPPPTNVTAVGSNANSSSGYRNSFSSSLSKDKTSYGNYGSTTSVETITRMDTNTTNIGATATEAGEASGVTAITNISNSDGIVAPTTGTITTS 798
9 -8.360[R] KOG3253 Predicted alpha/beta hydrolase  ali follow..  10  305..............................................................................................................................................................PLLDMKTP----VLFVIGQNSLQCHPEAMED-------------------------FREKIRAENSLVVVGGADDNL---RI-----------------------------SKAKKKSEGLTQSMVDRCIQDEIVDFLTGVLTRAEGHMGSEPRDQDAEKKKKPRDVARRDLAFEVPERGSRPASPAAKLPASPSGSEDLSSVSSSPTSSPKTKVTTVTSAQKSSQIGSSQLLKRHVQRTEAVLTHKQAQVPISSEPPEEGEKEDLRVQLKRHHPSSPLPGSKTSKRPLISQGDTAGGPCAPSQGSAPEAAGGKPITMTLGQASAGAKELTGLLTTAKSSSSEGGVSASPVPSVVSSSTAPSALHTLQSRLVATSPGSSLPGATSASSLLQGLSFSLQDISSKTSGLPANPSPGPAPQATSVKLPTPMQSLGAITTGTSTIVRTIPVATTLSSLGATPGGKPTAIHQLLT. 718
10 -7.990[ZUD] KOG2101 Intermediate filament-like protein, sorting nexins, and related proteins containing PX (PhoX) domain(s)  ali follow..  18  1......MNYTFSTNLDN--GSEINF---ASNYKINQL-----IF--------------------------------------------------------------NKK-----KSKNKLENEFQFLN-F--QFF---------------------QFQKNEIIQPKFQKTFFS--IISVFPFIRHVFRRKKNSKKI-----HKNATTTQLIMMNMSDPKQQQQQKIHV................................................................................................................................................................................................................................................................................................................................................................................................................ 139
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.

Schwarzenbacher R, Godzik A, Jaroszewski L. The JCSG MR pipeline: optimized alignments, multiple models and parallel searches. Acta Crystallogr D Biol Crystallogr. 2008 Jan;64(Pt 1):133-40. Epub 2007 Dec 5.