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Query: [K] COG3888 Predicted transcriptional regulator, from VFDB

Results of FFAS03 search in VFDB
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 MSLRDVLLRELKRARGLGIDQFQIEEMMGFSKSTVSEALKDLEEKGIIKRRTIGGKIKHVWLAEYYPYYDEKLLRIGCLRSTEYVKFVSVAKNYSESKGIDLIVRFYDDAISLMNDLSQGLLEFALAPIFTEIIYSISNRNSIILGAVASGGSGVYKNVNCNCGKILTSESSSMMILAREFAKTRKISEIAIFKDPRRAIKDYESFKAEYIVIWEPYASKIMGEKMASFSDVLDSFPCCGISVSENNRENRTLIEIVRLYKRSRFTAREDVIDIFAKSTSVSPKTAKASLENYIWDIKFYRSDLKKYLEFIGYPPIEEIIEKIYEEVLast
1 -104.000[K] COG3888 Predicted transcriptional regulator  ali  100  1MSLRDVLLRELKRARGLGIDQFQIEEMMGFSKSTVSEALKDLEEKGIIKRRTIGGKIKHVWLAEYYPYYDEKLLRIGCLRSTEYVKFVSVAKNYSESKGIDLIVRFYDDAISLMNDLSQGLLEFALAPIFTEIIYSISNRNSIILGAVASGGSGVYKNVNCNCGKILTSESSSMMILAREFAKTRKISEIAIFKDPRRAIKDYESFKAEYIVIWEPYASKIMGEKMASFSDVLDSFPCCGISVSENNRENRTLIEIVRLYKRSRFTAREDVIDIFAKSTSVSPKTAKASLENYIWDIKFYRSDLKKYLEFIGYPPIEEIIEKIYEEV 327
2 -52.900[P] COG4521 ABC-type taurine transport system, periplasmic component  ali follow..  1.................................................MAISSRNTLLAALAFIAFQAQAVNVTVAYQTSAEPAKVAQADNTFAKESGATVDWRKFDSGASIVRALASGDVQIGNLGSSPLAVAASQQVPIEVFLLASKLGKTISKPEDLIGKRIAVPFISTTHYSLLAALKHWGIKPGQVNLQPPAIIAAWQRGDIDGAYVWAPAVNALEKDGDSEQVGQWGAPTLDVWVVRKDFKHPEVVKAFSKSAIDAQQPYIAENISKLARLSGVPEGDVPGLVKGNTYTAELTGPVNKAIIDTAQFLKEQGKVPAVANDY 310
3 -39.800[P] COG0715 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components  ali follow..  1..................................MTEFFNQFSRRKFIFTAGASASAVFLKNVSAEQAPEVTTVKLGYIPIVESPLIIAKEKGFFAKYGLNVELSKQASWGSARDNVEIGSAGGGIDGGEGLITKGNQKIPMYVLCQLITHGNGIAIANKPTPFTAAQTFAVNQDFWIRYWLAAGGIDPDALTVPSAQTVANMKTGTMDAFSTGDPWPFRIVGFMAALTAEIWKNHPEEYLAMRSDWQHPKATKALLKGLMEAQQDNRKELAEIVAAYFNVPVDVLIDPYMG................................... 335
4 -19.200[R] COG2107 Predicted periplasmic solute-binding protein  ali follow..  10  2........................................................................KIRVAHTPDADDAFMFYAMTHGKVDTWLEIEHV-IEDIETLNRKAFNAEYEVTAI---SAHAYALLDDKYRILSAGASVGDGAKSEISLDGKRIAVPGRYTTANLLLKLAVE---DFEPVEMPFDRIIQAVLDEEVDAGLLIHEGQITYADYGLKCVLDL---LPLGLNAIRRDLSVEEEFLRAMRESIAFAIENPDEAIEYAMKYSRLDRERAKRFAMMYDYTYNMPESVDAALKKLYEMAEAKGLIKM..... 263
5 -17.800[R] COG1427 Predicted periplasmic solute-binding protein  ali follow..  11  2........................................................................TITVGEIKYTNAFPFFYVDRNKLLEKDCHF---LIQTPATLNREMKAGRIQVGPI---SSFAYAENVDEFVLMPNLSVSANG-RPLEELEGSRIALTTTSATSVHLLKILLKQYVGVNVTYDEMDPSFDEMMQDHDGCLLIGDEAIVTSWREEVETYRYDLGEMTFAVFAVRKDARQRAILEELYTAFVLSKEKNRKEQYASMIGHIQKGMGGTTAFWNHYNLVYDFHTQQQKGLLLFYEKAYEEGFLPKPIESI 273
6 -17.600[P] COG1464 ABC-type metal ion transport system, periplasmic component/surface antigen  ali follow..  11  7.........................................MKFSLKSLLTIAAAASTLILAGCGEKAVDNNKVKIGVMAGAEAQVAEVAAKVAKEKYNLDVELVTFTDYVTPNAALDDGSIDANAFQHKPYLDKQIADRGYKLAIVGNT-SKQIKSVDELDGARIAVPNDPTNLGRSLLLLQQQGLLKLREDVGLLATVRDIVENDVALSIINTTYASSITPEKDGIFVENKESPYVNILVAREANVNAENVQNFKKAYQT------DEVAKAASEIFQ............................................... 268
7 -16.600[P] COG3221 ABC-type phosphate/phosphonate transport system, periplasmic component  ali follow..  2........................................ISRRSALVIAAGLSALALASCSGKSDAPAANNEVTFSILSTESTQNMESYWTPILKQTGLKVKPFFSSNYSSLIVAMGAKQTDLGWFSNQSGLEAVRRSNGEVFARIIVPADSKIQSVQDLKSLDFGIKKSTSGTLAPMTYVFIPACFKTVISANHQANLFAVANGKLDASTNNSTAIGLSKARRVIWESPTLPEDP---LVWRKDIDPVEKLRQFFLTYAQGDTPEAEQQRGYLKRL----------SIGGFKPADDTHLLVVREMEATEQLGLAREAGDQ..... 309
8 -14.300[E] COG2113 ABC-type proline/glycine betaine transport systems, periplasmic components  ali follow..  5................................................ITAMTAGLLMTIGVAAAAEPESCKTVRFSDVGWTDITSTTAVASTILEALGYAPQSKLLSIPV-TYASMKNKDIDVYLPSMEADRKPFLEDKSIEVIGPNLTGAK--KFPDKFGRKIYGIEPGNNGNRMILDMINKGDFGLTGWELVESSVERATKDDQWIVFLGWAPYQIDYLSGADAYFGPNYGGADIYTNIRAGYAQECPNVARFVTEIMNGILNDGNDPKDAAADWLKAHPEAVAPWLEGVT--TFDGAPAKEAVESALK............... 311
9 -14.000[R] COG2358 TRAP-type uncharacterized transport system, periplasmic component  ali follow..  10  6................................................RFGLFTLAATVTFSTSVFAAPTFINILTGGTSGVYYPIGVGLSQIYGHDQGAKTSVQATKASVENLNLLQAGRGELALALGDSVADAWNGVADAGYIQVVASQASGIKTLADLKGKRISVAPKSGTELNARAIFKAAGLSYEDMYLPYAESVELIKNRQLDATLQ--G-LASTMPITFVAIPADVPAYHAASIPAGTYDGQEQDVPTVIDNILVSHSGVSDELAYQMTKLMFDNLPRLVTAAKDIALDKAAKNLPIPLHPGAERFYKEKGVLPE..... 319
10 -13.400[S] COG2512 Uncharacterized membrane-associated protein/domain  ali follow..  26  250...LCEVLDIIRGHKGR-ITQKDLRSKLDYSEVKVSLMLSELEKRGLIRKLRNG................................................................................................................................................................................................................................................................................. 299
11 -12.500[ET] COG0834 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain  ali follow..  10  1..............................................MKKLVLSLSLVLAFSSATAAFAAIPQNIRIGT--DPTYAPFIDLAKELCKRINTQCTFVENP---ALIPSLKAKKIDAIMSSLSQEIAFTDKLYAADSRLVVAKNSDIQPTVESLKGKRVGVLQGTTQETFGNEHWAPKGIEIVS-YQGQDNIYSDLTAGRIDAAFQ.................................................................................................................. 182
12 -12.000[Q] COG4663 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component  ali follow..  1.........................................MDRRSFIKHASIGGLGAAAAAPAIAQTNPKVTWRLTSSFPKSLDTIYGGAEVLSKYTDGNFQIQVFAAGEQAADAAAAGTVEACHTGGIDLFNEFLGTQGLVGYPGGNTGRKEIKTVADMKGLKMRVG-------FAGKVMERLGVVPQQL--AGGDIYPALEKGTIDAAEWVGPYDDEKLGAPYYYYPGWWEGGPTVHAMFNKAAFDPKAYQSLLRTACQ------ATDANMLQKYDYLNPSAIKRLVAAGAKLSPFSPEILSACFDESEMEASNAPFKKIWESI 337
13 -11.600[K] COG1497 Predicted transcriptional regulator  ali follow..  15  10.LTRFQILSEIAMRQPY-VRQKDIADKLGVTVQAVSENIKSLIAEGLVESGSGRSHYKITRRGAEKIKEAAMDLRLESMSFYRSVWPAIAWEDLQEGDKVELFMED-EAYAEVLHPARRGE-DVALSELGGTIPLQRGKVTIAVLPGISEGGSRNADLERLRELSRGHDRTGIMGTVSRAAANKLNLQVDFEFATPHAALAAAKRG-LNVLVL.................................................................................................................. 234
14 -11.200[S] COG3373 Uncharacterized protein conserved in archaea  ali follow..  17  17.ELRRKVLFYLLSIYPYRSYLSEISRAVKSDPSNVKGCLESLIGLGLVIVEQSKNGFKYFKINPEIVEEVRNMVEIG.......................................................................................................................................................................................................................................................... 113
15 -10.900[K] COG3355 Predicted transcriptional regulator  ali follow..  25  31.....EVLHILLQNGK--MTTDDLSQKLNVTKASISKALNNLLDKGLIQRE.................................................................................................................................................................................................................................................................................... 74
16 -10.600[K] COG5625 Predicted transcription regulator containing HTH domain  ali follow..  16  21.KNEIRIYRLLVEKRRG-MRIREIQRELGISERSVRTHVLNLYRRGLLKRELVQSGWLGYIYTPVSPLEILQKIK............................................................................................................................................................................................................................................................ 93
17 -10.600[S] COG3388 Uncharacterized protein conserved in archaea  ali follow..  17  17LKRHISVINVLLREQP--IGIIKLSQETGIPEHKIRYSLRILEQENIISPSREGAILT............................................................................................................................................................................................................................................................................. 72
18 -10.300[M] COG1732 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein)  ali follow..  1...............................................MTISKLWVSSLALLATVSLPLQAASPVTVGSKIDTEGALLGNMILQVLESHGVKTVNKILGTTPVVRGAITAGELDIYPEYTGNGAFAPANNTWTIAIRQDIAEKNKLSSLADLSRYL-ASAEFIERADALPAFEKAYDFTLNQNQTAVTIKAAAQQTSGVNAAMAYDGPVAALGLQTLSDPKGVQPIYAPAPVVRESVLQAYPQIADWLQP---------------------VFASLDEKTLQQLNARIAVEGLDAKKVAA--DYLRQKGWVK...... 305
19 -9.940[KH] COG1339 Transcriptional regulator of a riboflavin/FAD biosynthetic operon  ali follow..  25  7.....FLLIKLAKMGEITVTMRELSRELDVSPQTVLRWLEELKEQGYIHKRE................................................................................................................................................................................................................................................................................... 57
20 -9.370[R] COG4588 Accessory colonization factor AcfC, contains ABC-type periplasmic domain  ali follow..  11  5........................................................ITLFGACALAFSMANADVNL-YGPGGPHTALKDIANKYSEKTGVKVNVN-FGPQATWFEKAKKDADILFGASDQSALAIASDFGKDAIILTQKGNPLKIKGLKDLANKKVGKSNTSGTGVWEDMIGRTQDINIVAFVPNSGSARKLFAQDQADAWITWIDWSKSNPDIGTAVAIEK-DLVVYRTFNVIAKEGASKETQDFIAYLSS------KEAKEIFKKY................................................. 246
21 -9.320[K] COG2345 Predicted transcriptional regulator  ali follow..  20  16.DTRRKILLILLERAP--VIASDIAEQLQLSTVGVRRHLDNLVEENLAEAA.................................................................................................................................................................................................................................................................................... 63
22 -9.220[S] COG4519 Uncharacterized protein conserved in bacteria  ali follow..  22  1MELSPVFARRLY-ESLERPNVPKLIEKTGWPRRTIQDVIKAMPGIGIELN..................................................................................................................................................................................................................................................................................... 54
23 -9.050[K] COG1777 Predicted transcriptional regulators  ali follow..  17  15.STRREIIRMLTQFER--SYALELSRSIGLSQQAILKQLEMLERANLVTSIGFV................................................................................................................................................................................................................................................................................. 65
24 -9.050[K] COG4190 Predicted transcriptional regulator  ali follow..  19  69.PRVLELIEAIRQEEPASI--NETARVVDRDVKNVHEELSRLAHLGIIFFEEDG................................................................................................................................................................................................................................................................................. 119

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.

Rychlewski L, Zhang B, Godzik A. Functional insights from structural predictions: analysis of the Escherichia coli genome. Protein Sci. 1999 Mar;8(3):614-24.