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Query: [KH] COG1339 Transcriptional regulator of a riboflavin/FAD biosynthetic operon, 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 MKMKTLFLLIKLAKMGAIGKEITVTMRELSRELDVSPQTVLRWLEELKEQGYIHKRESRKGTLVELTEKGINLLEKLYEEISTALYSGFIVGEVISGIGEGAYYVRQYAPLIREYLGFDPYPGTLNVRVLFPKTIFDALCTARPIIIPGFTRNGRTFGDVRAYRVRIDGIEGAIVIPSRTVHPPKIAEIIAPVKLRDALNLKDGDKVRIEVVLast
1 -96.700[KH] COG1339 Transcriptional regulator of a riboflavin/FAD biosynthetic operon  ali  100  1MKMKTLFLLIKLAKMGAIGKEITVTMRELSRELDVSPQTVLRWLEELKEQGYIHKRESRKGTLVELTEKGINLLEKLYEEISTALYSGFIVGEVISGIGEGAYYVRQYAPLIREYLGFDPYPGTLNVRVLFPKTIFDALCTARPIIIPGFTRNGRTFGDVRAYRVRIDGIEGAIVIPSRTVHPPKIAEIIAPVKLRDALNLKDGDKVRIEVV 212
2 -24.900[K] COG1846 Transcriptional regulators  ali follow..  14  40LTPSEIHTIDAIGTDE------GLLMKELAERLGVTKGAVSQLVDRLEAKALVRRTAVSRGIQVVLTDKGREAYRAHADMHAAFYEELQQSFTK-EEIAIFEQCVSKLRDILSE.................................................................................................. 149
3 -24.300[K] COG3355 Predicted transcriptional regulator  ali follow..  16  25LSKSDVEVLHILLQNG------KMTTDDLSQKLNVTKASISKALNNLLDKGLIQREKEKEERKGRPNYIYWVEKERLYRKLEADLEKLAGTVKEALQKHTALEIV........................................................................................................... 126
4 -22.900[K] COG5631 Predicted transcription regulator, contains HTH domain (MarR family)  ali follow..  12  81LSPIEILILHSIRHRDR-----EKKLADICLALDIETHIATYAIRKLEKAGLLTTGKAAKEKTVKITAKGAEACAHYAQIRERLLVDSTANARPSETLSELAALLRFMSGAFNQ.................................................................................................. 191
5 -18.800[S] COG3373 Uncharacterized protein conserved in archaea  ali follow..  17  16.SELRRKVLFYLLSIY----PYRSYLSEISRAVKSDPSNVKGCLESLIGLGLVIVEQSKNGKYFKINPEIVEEVRNMKNMFSD................................................................................................................................. 104
6 -18.800[S] COG2469 Uncharacterized conserved protein  ali follow..  17  197LSEVEEQILTMVYT--------GVDSVSVESILGVTTEELNKMYDRLVNLGLARVVKIRKE--IELTPRGVALVSEIMKKAAR................................................................................................................................. 269
7 -18.000[K] COG4190 Predicted transcriptional regulator  ali follow..  18  67LTPRVLELIEAIRQEE------PASINETARVVDRDVKNVHEELSRLAHLGIIFFEEDGQRKRPVVW................................................................................................................................................. 127
8 -17.400[K] COG3432 Predicted transcriptional regulator  ali follow..  17  33.KRGTMEIMFDILRN-----EPKCGITRVIYGAGINYVVAQKYLDQLVKVGALNIKTENDRKIYEITEKGKLLRTHIEE..................................................................................................................................... 106
9 -17.300[S] COG2512 Uncharacterized membrane-associated protein/domain  ali follow..  21  246LSPELCEVLDIIRGHKG-----RITQKDLRSKLDYSEVKVSLMLSELEKRGLIRKLRNGRENILVLVDEEH............................................................................................................................................. 311
10 -16.800[K] COG1497 Predicted transcriptional regulator  ali follow..  13  9.ELTRFQILSEIAM-----RQPYVRQKDIADKLGVTVQAVSENIKSLIAEGLVESG--SGRSHYKITRRGAEKIKEAAMDLRRYADE............................................................................................................................. 87
11 -16.600[K] COG0640 Predicted transcriptional regulators  ali follow..  12  1.........................MNEITMQTQADQPKVSSNLAILSEARLVDSIQMGREKIYRIAPEKFEDMVDWLDSI................................................................................................................................... 56
12 -15.900[K] COG5625 Predicted transcription regulator containing HTH domain  ali follow..  21  19LKKNEIRIYRLLVEKRR-----GMRIREIQRELGISERSVRTHVLNLYRRGLLKRELVQSG....................................................................................................................................................... 74
13 -15.600[K] COG2345 Predicted transcriptional regulator  ali follow..  10  15.GDTRRKILLILLERA------PVIASDIAEQLQLSTVGVRRHLDNLVEENLAEAANPRQNRPAKTYRLTDKGRSIFGHEYDSLAAAALATLREVGGDDAVRQFARKRIETIVEGITPADVTDQ---SIEDTAKSLVEAFSRHGYAATVDATRN----GLQLCQHHCPISTVATEFPELCEAEHQAVSELLGQHTQPLATIADGH....... 213
14 -15.000[K] COG4742 Predicted transcriptional regulator  ali follow..  28  12.SQKRRDLLLLLG-------EEPRTMEDIKVLLDVSPTAILPQIKRLTDSNLVIQKNGS----YELTDMGEQVFKKARA..................................................................................................................................... 78
15 -15.000[S] COG3398 Uncharacterized protein conserved in archaea  ali follow..  22  185.NATNQRIISEIQNGK------CNTNLALAREIGVSRATISWYVKNLKETGLIDETRSGRSIIYSINPSYEPLIEKY....................................................................................................................................... 254
16 -14.900[S] COG4344 Uncharacterized protein conserved in archaea  ali follow..  14  13NDYDMLRVLKHFTIAHVD------YAKNITRYTEIPQMRVREYLKRLKDLGLLDYEVHKHHTYYQINKKAEAVLKEI....................................................................................................................................... 100
17 -14.900[K] COG1777 Predicted transcriptional regulators  ali follow..  20  14.NSTRREIIRMLTQFE------RSYALELSRSIGLSQQAILKQLEMLERANLVTSIGFVPSS...................................................................................................................................................... 68
18 -14.200[S] COG3388 Uncharacterized protein conserved in archaea  ali follow..  15  16TLKRHISVINVLLREQ------PIGIIKLSQETGIPEHKIRYSLRILEQENIISPSREG----AILTPDFIEHKEQIIADAEKVLEEA............................................................................................................................ 93
19 -14.200[K] COG1695 Predicted transcriptional regulators  ali follow..  21  1MDRYAIKALVLLSKKPRTLYQ----SKEISTGVQVSHGTLMPMIRKLLQERYIDFETRGREKVYHLTERGSRFVESLGKIEEDVKQN............................................................................................................................. 84
20 -13.600[S] COG4519 Uncharacterized protein conserved in bacteria  ali follow..  8  1MELSP-VFARRLYLALLVESLERPNVPKLIEKTGWPRRTIQDVIKAMPGIGIELNFVQDGRR...................................................................................................................................................... 61
21 -13.500[K] COG1510 Predicted transcriptional regulators  ali follow..  15  29MPSTVGRVLGIIY------NRKPMTLSELSEATGMSKTRMSQVVREMIDANIAEKVFEKGVRK..................................................................................................................................................... 86
22 -13.400[K] COG1321 Mn-dependent transcriptional regulator  ali follow..  19  5HTDRIEEYLETILYLIT-KNQGPAKTKQIAEELNVSSPSVTEMIKKLHSMGFVEYKPYQG---VELTEKGAEEAVRIKRKHQ.................................................................................................................................. 82
23 -13.100[K] COG4738 Predicted transcriptional regulator  ali follow..  16  34INRPVALTLACLSKGD------EISSQRIEMVSGLRQPEVSIAMRYLRENEWVDMREEKKNH...................................................................................................................................................... 89
24 -12.700[K] COG1522 Transcriptional regulators  ali follow..  26  6LDKIDRKILEVLQSNG------RLTNLEVAERVNLSPSPCLRRIRRLEESGVIRQ............................................................................................................................................................. 54
25 -11.900[J] COG4901 Ribosomal protein S25  ali follow..  19  63.......................ITPYEIASKYGIKMSVAFKVLRNLKERGDLVLVAKGHRTEI.................................................................................................................................................... 103
26 -11.900[K] COG3327 Phenylacetic acid-responsive transcriptional repressor  ali follow..  16  16.PVSGTSLISSLYGDSLSHRGGEIWLGSLAAGLGFGERFVRTALFRLNKEGWLDVSRIGRRSFYSLSDKGLRLTRRAESKI................................................................................................................................... 98
27 -11.700[K] COG2390 Transcriptional regulator, contains sigma factor-related N-terminal domain  ali follow..  12  9..........MISRVAQMYFSEHKRQAEIAQHLNLSQATVSRMLKRAEAEGIVRTSIIPPPGTYSDLEAQLRERFDLPEAIVVDCSEDRDGAIMARIGEAAAHFLEVTLSQ-NEIIGVSSWSQTIFKMVENIHPLKGAKARYIVQTLGGMGDPSVQTHATQILARLTEAEPKLLPVPGVATSREAKLLMLADPFVRETIDLFGSITLAI... 209
28 -11.500[K] COG0583 Transcriptional regulator  ali follow..  14  5LDWDKLRIFHAAAEAG--------SFTHAAQTLHLSQSAISRQVSALEQD-VGVPLFHRHARGLILTEQGETLYRTAHDVLMKLENVRSKLAESREKPS-----------------------GRLRVTTTV------------------------GLGSGWLIE---------RIQEFVELYPDVQLQLILDNEELDL--TMRHADCAVRL. 148
29 -11.500[K] COG1802 Transcriptional regulators  ali follow..  13  13LRYQVENVLRQAIMSGRFTPGERLIERELCETLGVSRTSIREALRRLEAEKLVSIVPHKGPIVAIISRQEAAELFALRGLLEGFAAREFAQRATDVAIVHFAQAIQALRMAGMT.................................................................................................. 126
30 -11.500[R] COG2005 N-terminal domain of molybdenum-binding protein  ali follow..  15  17ADPRRISLLKHIALSG--------SISQGAKDAGISYKSAWDAINDMNQL-LVERATGGKG--AVLTRYGQRLIQLYDLLGQIQQKAFDVLSDDDALPLDSLLAAISRFSLQTSARDRDLVQQHVDVLLADGKTRLKVALTAQSGERLGLEEGKEVLILLKAPWVGINQLSGTISHIERGAEQCEVLTLCATIPTSDAATLKEGDDVIAWF. 251
31 -11.300[R] COG3413 Predicted DNA binding protein  ali follow..  10  167LTDLQVKTIKQAYVNGYYDYPRRCTLGDLAKINGISKNAMAKRLKSVEKK.................................................................................................................................................................. 216
32 -11.300[R] COG4533 ABC-type uncharacterized transport system, periplasmic component  ali follow..  15  1MPSARLQQQFIRLWQCCEGKSQDTTLNELAALLSCSRRHMRTLLNTMQDRGWLTWEAEGKRSRLTFLYTGLALQQQRAEDLLEQDRIDQLVQLVGDKATVRQMLVSHLGRSFRQGRHILRVLYYRPLRNLLPGSALRRSETHIARQI---------------FSSLTRNEENGELEADIAHHWQQISPLHWRFFLRPGVHFHHGRELEMDDV 201
33 -11.200[K] COG1959 Predicted transcriptional regulator  ali follow..  18  3LTSFTDYGLRALIYMASLPEGRMTSISEVTDVYGVSRNHMVKIINQLSRAGYVTAVRGKNG....................................................................................................................................................... 63
34 -11.100[S] COG4861 Uncharacterized protein conserved in bacteria  ali follow..  15  143FTPKRAQVVCVLLDA---PQLVDAPLRAIAASAGVSVGMAKETMDTLRTTGFFEHLGSRR........................................................................................................................................................ 199
35 -10.800[K] COG1414 Transcriptional regulator  ali follow..  32  21.....LDILELLA-----SVDGGLTQAEIAKHLDRSPNEFYRMLDRLVKRGYVTKLDGDR........................................................................................................................................................ 70
36 -10.700[S] COG4860 Uncharacterized protein conserved in archaea  ali follow..  17  23.SEVKRKLLLDLST-------GWITLPVIEQKYG---KEGRRALLYLDKIKMIETQ............................................................................................................................................................ 67
37 -10.700[S] COG4754 Uncharacterized conserved protein  ali follow..  10  6DPNARIADLVGLLYVMNNIFDGKTDLYQLEKEMEVDIDDLMPIVYTASRLGFVSAESGD----IIVTEEGKEYIRASIKRRKEIIREAL........................................................................................................................... 90
38 -10.600[K] COG4189 Predicted transcriptional regulator  ali follow..  16  22.SLIRVQILKLLHEAN------GLNVNEIAQRLALPQSTVSAGVAVLEEAGLLRTETRKARK...................................................................................................................................................... 76
39 -10.500[K] COG1654 Biotin operon repressor  ali follow..  17  4.TTVPLTLISLL------ADGEFHSGEQLGERLGMSRAAINKHIQTLRDWGVDVFTVPGKGYSL.................................................................................................................................................... 60
40 -10.500[J] KOG1767 40S ribosomal protein S25  ali follow..  19  61.......................ITPSILSDRMRINGSLARRAIRELMAKGVIRMVAAHSSQQI.................................................................................................................................................... 101
41 -10.100[K] COG1725 Predicted transcriptional regulators  ali follow..  32  19........MKKQMITGEWKGEDKLSVREMGVKLAVNPNTVSRAYQELERAGYIYAKR........................................................................................................................................................... 68
42 -10.000[K] COG5340 Predicted transcriptional regulator  ali follow..  21  14LSTRESRLLSHLAAEGH------ISIDDVEATLEVAPNTAREIASRLTEKGWLDRLLPG......................................................................................................................................................... 68
43 -9.940[K] COG3888 Predicted transcriptional regulator  ali follow..  25  6......VLLRELKRAR----GLGIDQFQIEEMMGFSKSTVSEALKDLEEKGIIKRRT........................................................................................................................................................... 52
44 -9.750[K] COG1675 Transcription initiation factor IIE, alpha subunit  ali follow..  24  23...EVGLILFSLGIEGE------FTDDQLSLELGIEINEIRKALFALYEIGLADYVRRRDDE...................................................................................................................................................... 75
45 -9.620[T] COG0664 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases  ali follow..  21  167.......LIAFLYRKAKAANLLPVTQQHVADTLGLSIVHTNKTLRKLVDRGLIR.............................................................................................................................................................. 219
46 -9.600[S] COG1356 Uncharacterized protein conserved in archaea  ali follow..  19  5LTEQQIKVLVLRAK--------GLKQSEIARILKTTRANVSILEKRALEK.................................................................................................................................................................. 46
47 -9.540[K] COG3682 Predicted transcriptional regulator  ali follow..  10  3ITAAEAHVMEALWRRS------PLSADELVAEVSWGEATVKTLINRLLKKKAIKSERAEGKHGYRPLVDRSAYVQAESQGL................................................................................................................................... 81
48 -9.470[K] COG2188 Transcriptional regulators  ali follow..  29  17......DYILANIGTGRWGKDRKLSENELVASLGVSRMTVHRALRELTAAGFLIRLQ........................................................................................................................................................... 68
49 -9.410[KG] COG1349 Transcriptional regulators of sugar metabolism  ali follow..  21  4.RQRQAAILEHLQKQGK------CSVEELAQYFDTTGTTIRKDLVILENAGTVIRTYGG......................................................................................................................................................... 55
50 -9.140[T] KOG4603 TBP-1 interacting protein  ali follow..  10  10.AGAAGILLRYLQEQNRPYSSQDVF-GNLQREHGLGKAVVVKTLEQLAQQGKIKEKMYGKQKIYFADQDQFDMVSD--ADLQVLDGKIVALTAKVQSLQQSCRYMEAELKELSSALTTPEMQKEIQELKKECAGYRERLKNIKA--------ATNHVTPEEKEQVYRERQKYCKEWRKRKRMATELSDAILEKQFFEEVGIETDEDYNVTL. 214
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.

Jaroszewski L, Rychlewski L, Godzik A. Improving the quality of twilight-zone alignments. Protein Sci. 2000 Aug;9(8):1487-96.