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Query: 3f6w_A mol:protein length:83 XRE-family like protein, from PDB1018

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 SNATKTIHNARYQALLDLLLEARSAAGITQKELAARLGRPQSFVSKTENAERRLDVIEFMDFCRGIGTDPYALLSKLEAMTPSLast
1 -48.4003f6w_A mol:protein length:83 XRE-family like protein  ali model  100  1SNATKTIHNARYQALLDLLLEARSAAGITQKELAARLGRPQSFVSKTENAERRLDVIEFMDFCRGIGTDPYALLSKLEAMTPS 83
2 -41.7002ef8_A mol:protein length:84 Putative transcription factor  ali model follow..  36  1....PTIHDHRYRCLVQLLTKLRKEASLSQSELAIFLGLSQSDISKIESFERRLDALELFELLEVVASRLGLPMDILLKDTYE 79
3 -39.5003eus_A mol:protein length:86 DNA-binding protein  ali model follow..  46  2.AMTKTLRTPEHVYLCQRLRQARLDAGLTQADLAERLDKPQSFVAKVETRERRLDVIEFAKWMAACEG............... 68
4 -36.2004i6u_A mol:protein length:82 Regulatory protein  ali model follow..  16  2....SHMESFLLSKVSFVIKKIRLEKGMTQEDLAYKSNLDRTFISGIERNSRNLTIKSLELIMKGLEVSDVVFFEMLIKEILK 80
5 -36.0004fn3_A mol:protein length:82 Regulatory protein  ali model follow..  15  2....SHMESFLLSKVSFVIKKIRLEKGMTQEDLAYKSNLDRTYISGIERNSRNLTIKALELIMKGLEVSDVVFFEMLIKEILK 80
6 -36.0004f8d_A mol:protein length:82 Regulatory protein  ali model follow..  13  2....SHMESFLLSKVSFVIKKIRLEKGMTQEDLAYKSNLDRTYISGIERNSANLTIKSLELIMKGLEVSDVVFFEMLIKEILK 80
7 -35.9004ia8_A mol:protein length:82 Regulatory protein  ali model follow..  15  2....SHMESFLLSKVSFVIKKIRLEKGMTQEDLAYKSNLDRTAISGIERNSRNLTIKSLELIMKGLEVSDVVFFEMLIKEILK 80
8 -35.9004i6t_A mol:protein length:82 Regulatory protein  ali model follow..  15  2....SHMESFLLSKVSFVIKKIRLEKGMTQEDLAYKSNLDRAYISGIERNSRNLTIKSLELIMKGLEVSDVVFFEMLIKEILK 80
9 -35.2002b5a_A mol:protein length:77 C.BclI  ali model follow..  21  6.........EIKRKFGRTLKKIRTQKGVSQEELADLAGLHRTYISEVERGDRNISLINIHKICAALDIPASTFFRKMEEE... 76
10 -35.2003g5g_A mol:protein length:99 Regulatory protein  ali model follow..  15  13....SHMESFLLSKVSFVIKKIRLEKGMTQEDLAYKSNLDRTYISGIERNSRNLTIKSLELIMKGLEVSDVVFFEMLIKEILK 91
11 -34.8001y7y_A mol:protein length:74 C.AhdI  ali model follow..  23  3...SHHDHYADLVKFGQRLRELRTAKGLSQETLAFLSGLDRSYVGGVERGQRNVSLVNILKLATALDIEPRELFC........ 74
12 -34.5003fya_A mol:protein length:99 Regulatory protein  ali model follow..  15  13....SHMESFLLSKVSFVIKKIRLEKGMTQEDLAYKSNLDATYISGIERNSRNLTIKSLELIMKGLEVSDVVFFEMLIKEILK 91
13 -32.6003vk0_A mol:protein length:114 Transcriptional regulator  ali model follow..  20  16........QDLRAVLAYNMRLFRVNKGWSQEELARQCGLDRTYVSAVERKRWNIALSNIEKMAAALGVAAYQLLLPPQERLKL 90
14 -30.2003ivp_A mol:protein length:126 Putative transposon-related DNA-binding protein  ali model follow..  16  1..MRKKEDKYDFRALGLAIKEARKKQGLTREQVGAMIEIDPRYLTNIENKGQHPSLQVLYDLVSLLNVSVDEFF......... 72
15 -30.2004z5h_A mol:protein length:72 Antitoxin HipB  ali model follow..  23  9............TQLANAMKLVRQQNGWTQAELAKKIGIKQATISNFENNPDNTTLTTFFKILQSLELSMTLCDAK....... 72
16 -29.9002ewt_A mol:protein length:71 putative DNA-binding protein  ali model follow..  16  1......MSSEYAKQLGAKLRAIRTQQGLSLHGVEEKSQWKAVVVGSYERGDRAVTVQRLAELADFYGVPVQELL......... 70
17 -29.8002wiu_B mol:protein length:88 HTH-TYPE TRANSCRIPTIONAL REGULATOR HIPB  ali model follow..  18  1..MMSFQKIYSPTQLANAMKLVRQQNGWTQSELAKKIGIKQATISNFENNPDNTTLTTFFKILQSLELSMTLCDAKNASPEST 81
18 -29.7003kxa_A mol:protein length:141 Putative uncharacterized protein  ali model follow..  25  61............KAGGETFVSLRMKKGFTQSELATAAGLPQPYLSRIENSKQSLQDKTVQKLANALGVSPLEVRAAFERRYEY 131
19 -29.5001rio_A mol:protein length:98 Repressor protein CI  ali model follow..  14  17............RRLKAIYEKKKNELGLSQESVADKMGMGQSGVGALFNGINALNAYNAALLAKILKVSVEEFSPSIAREIYE 87
20 -29.1003kz3_A mol:protein length:80 Repressor protein CI  ali model follow..  12  8.........EDARRLKAIWEKKKNELGLSYESVADKMGMGQSAVAALFNGINALNAYNAALLAKILKVSVEEFSPSIAREIR. 80
21 -28.9001lli_A mol:protein length:92 PROTEIN (LAMBDA REPRESSOR)  ali model follow..  15  16............RRLKAIYEKKKNELGLSQESLADKLGMGQSGIGALFNGINALNAYNAALLAKILKVSVEEFSPSIAREIYE 86
22 -28.4003f51_A mol:protein length:117 Clp gene regulator (ClgR)  ali model follow..  19  27............EALGAALRSFRADKGVTLRELAEASRVSPGYLSELERGRKEVSSELLASVCHALGASVADVLIEAAGSMAL 97
23 -28.0005k98_B mol:protein length:91 Antitoxin HipB  ali model follow..  21  14............TQLANAMKLVRQQNGWTQSELAKKIGIKQATISNFENNPDNTTLTTFFKILQSLELSMTLCDTKNASPEST 84
24 -27.4003qq6_A mol:protein length:78 HTH-type transcriptional regulator sinR  ali model follow..  16  3............SMIGQRIKQYRKEKGYSLSELAEKAGVAKSYLSSIERNLQNPSIQFLEKVSAVLDVSVHTLLDEKHET... 71
25 -26.7005woq_A mol:protein length:120 Transcriptional regulator ClgR  ali model follow..  15  9............EVIGDVLRNARTDQGRTLREVSDAARVSLGYLSEVERGRKEASSELLSAICDALDVPLSRVLTDAGESMAR 79
26 -26.6001adr_A mol:protein length:76 P22 C2 REPRESSOR  ali model follow..  19  4............QLMGERIRARRKKLKIRQAALGKMVGVSNVAISQWERSETEPNGENLLALSKALQCSPDYLLK........ 66
27 -26.4002k9q_A mol:protein length:77 uncharacterized protein  ali model follow..  25  3..............LSNELKVERIRLSLTAKSVAEEMGISRQQLCNIEQSETAPVVVKYIAFLRSKGVDLNALFDR....... 64
28 -26.3004pu3_D mol:protein length:118 Toxin-antitoxin system antidote transcriptional repressor Xre family  ali model follow..  22  42............QSLGLLIKERRKSAALTQDVAAMLCGVTKKTLIRVEKGE-DVYISTVFKILDGLGIDIVSAQTSDTET... 108
29 -26.3001b0n_A mol:protein length:111 PROTEIN (SINR PROTEIN)  ali model follow..  16  1.............MIGQRIKQYRKEKGYSLSELAEKAGVAKSYLSSIERNLQNPSIQFLEKVSAVLDVSVHTLLDEKHET... 68
30 -26.2005uk3_A mol:protein length:176 Uncharacterized protein  ali model follow..  14  18............QIMSNQFIKAKESKGLTYQQMAQLLSVNKVWLTSVLHGQNCCDIQLAHRICDTLGISHEYANE........ 80
31 -26.1002mez_A mol:protein length:106 Multiprotein Bridging Factor (MBP-like)  ali model follow..  18  11..............YYKIIKTAREQLGISQQQLAQKLKVSENIVKRFESGKLKPTISQARQLEKILGIKLVTPLENNEESEKE 79
32 -25.9002xiu_A mol:protein length:66 CYLR2  ali model follow..  15  1.............MIINNLKLIREKKKISQSELAALLEVSRQTINGIEKNKYNPSLQLALKIAYYLNCPLEDIFQWQPE.... 66
33 -25.8001utx_A mol:protein length:66 CYLR2  ali model follow..  16  1.............MIINNLKLIREKKKISQSELAALLEVSRQTINGIEKNKYNPSLQLALKIAYYLNTPLEDIFQWQPE.... 66
34 -25.8003omt_A mol:protein length:73 uncharacterized protein  ali model follow..  16  7............RKIFNRLKSVLAEKGKTNLWLTETLDKNKTTVSKWCTNDVQPSLETLFDIAEALNVDVRELIVSTKR.... 73
35 -25.7003bs3_A mol:protein length:76 Putative DNA-binding protein  ali model follow..  14  5........SNNQQMMLNRIKVVLAEKQRTNRWLAEQMGKSENTISRWCSNKSQPSLDMLVKVAELLNVDPRQLIN........ 71
36 -25.5004y42_A mol:protein length:156 Cyanate hydratase  ali model follow..  16  1..MTQSLHYSPRETLTDTIMMAKIRKNLTFEAINQGTGLSLAFVTAALLGQHPLPEQAARVVAEKLDLDEDAIRL........ 74
37 -25.5003b7h_A mol:protein length:78 Prophage Lp1 protein 11  ali model follow..  16  2........KTDGEFVSEHLMELITQQNLTINRVATLAGLNQSTVNAMFEGRKRPTITTIRKVCGTLGISVHDFFD........ 69
38 -25.4002ofy_A mol:protein length:86 Putative XRE-family transcriptional regulator  ali model follow..  16  15............QRLGELLRSAR--GDMSMVTVAFDAGISVETLRKIETGRATPAFFTIAAVARVLDLSLDDVAAVVTF.... 80
39 -25.3001x57_A mol:protein length:91 Endothelial differentiation-related factor 1  ali model follow..  16  7.......GDRVTLEVGKVIQQGRQSKGLTQKDLATKINEKPQVIADYESGRAIPNNQVLGKIERAIGLKLRGKDI........ 74
40 -25.2003lfp_A mol:protein length:98 Csp231I C protein  ali model follow..  18  1.............MLIRRLKDARLRAGISQEKLGVLAGIDEA-MNQYEKGKHAPDFEMANRLAKVLKIPVSYLYTPEDDLAQ. 73
41 -24.8001dw9_A mol:protein length:156 CYANATE LYASE  ali model follow..  16  2..IQSQINRNIRLDLADAILLSKAKKDLSFAEIADGTGLAEAFVTAALLGQQALPADAARLVGAKLDLDEDSILL........ 74
42 -24.8003mlf_A mol:protein length:111 transcriptional regulator  ali model follow..  16  16............SNAMKTLKELRTDYGLTQKELGDLFKVSSRTIQNMEKDSTNIKDSLLSKYMSAFNVKYDDIF......... 77
43 -24.6004ghj_A mol:protein length:101 Probable transcriptional regulator  ali model follow..  20  18.AMKHVTAAALAEEIGDRLKQARLNRDLTQSEVAEIAGIARKTVLNAEKGKVQLDIMIAILMALDLTEQIDLFIPK....... 92
44 -24.3001zug_A mol:protein length:71 PHAGE 434 CRO PROTEIN  ali model follow..  22  2............QTLSERLKKRRIALKMTQTELATKAGVKQQSIQLIEAG-VTKRPRFLFEIAMALNCDPVWLQYGTKRGKAA 71
45 -24.2004o8b_A mol:protein length:122 Uncharacterized protein  ali model follow..  17  1.............MLGTRLKAARIRAGYSQKQLGMLVGMDSARMNQYERERHSPNMRTSEQLAMVLQVPMAYLYCPEDELAE. 73
46 -24.1006b9s_A mol:protein length:457 Methylphosphonate synthase  ali model follow..  7  1..MEKKIDDSYLIRSGNNFLGILNDIKRRPEDAANELGVSIEEINSIISGKQKISPSLIEKAVNIWPVNERDFYIVSDDCSSG 84
47 -23.8001per_L mol:protein length:69 PROTEIN (434 REPRESSOR)  ali model follow..  20  1.............SISSRVKSKRIQLGLNQAELAQKVGTTQQSIEQLENG-KTKRPRFLPELASALGVSVDWLLNGTSD.... 65
48 -23.7001zz6_A mol:protein length:198 Hydroxypropylphosphonic Acid Epoxidase  ali model follow..  21  5........KTASTGFAELLKDRREQVKMDHAALASLLGETPETVAAWENGEGGLTLTQLGRIAHVLGTSIGALTPPAGNDLDD 80
49 -23.5002kpj_A mol:protein length:94 SOS-response transcriptional repressor, LexA  ali model follow..  9  4........DKQKAIFSENLNSYIAKSEKTQLEIAKSIGVSPQTFNTWCKGIAIPRMGKVQALADYFNINKSDLIEDKKLNIDT 78
50 -23.4005j2y_A mol:protein length:80 Regulatory protein  ali model follow..  17  2....ASHERTQPQNMAFRAKATRTARRESQETFWSRFGISQSCGSRFENGENLPFIYLLLHFYIEGQITDRQLADLRGKIRE. 80
51 -23.4001sq8_A mol:protein length:64 dh434  ali model follow..  22  2.............LMGERIRARRIQLGLNQAELAQKVGVDQQAIEQLENG-KAKRPRFLPELARALGVAVDWLLN........ 62
52 -23.3002l49_A mol:protein length:99 C protein  ali model follow..  15  5..............ISEKIVLMRKSEYLSRQQLADLTGVPYGTLSYYESGRSTPPTDVMMNILQTPQFTKYTLWFMTNQIAPE 73
53 -23.2003op9_A mol:protein length:114 Pli0006 protein  ali model follow..  12  10..............FAENLSRLKKEHGLKNHQIAELLNVQTRTVAYYMSGETKPDIEKLIRLATYFHLSIDELVGYVQED... 75
54 -23.2001y9q_A mol:protein length:192 transcriptional regulator, HTH_3 family  ali model follow..  13  6........VMFKSQIANQLKNLRKSRGLSLDATAQLTGVSKAMLGQIERGESSPTIATLWKIASGLEASFSAFFAN....... 73
55 -23.1002r63_A mol:protein length:63 REPRESSOR PROTEIN FROM BACTERIOPHAGE 434  ali model follow..  20  2..............ISSRVKSKMIQLGLNQAELAQKVGTTQQSIEQLENG-KTKRPRFLPELASALGVSVDWLL......... 60
56 -22.9002p5t_A mol:protein length:158 Putative transcriptional regulator PezA  ali model follow..  15  1.............MIGKNIKSLRKTHDLTQLEFARIVGISRNSLSRYENGTSSVSTELIDIICQKFNVSYVDIVGEDKMLNPV 70
57 -22.6006b9r_A mol:protein length:450 Hydroxyethylphosphonate dioxygenase  ali model follow..  19  236............GDHGAMLRSVMAARLTTVTELADRSGLKTDRVAALCRTPARAEWPELSALAEALGVSVRELLVPHTTTEAD 306
58 -21.8002jvl_A mol:protein length:107 TrMBF1  ali model follow..  16  35..............VGKAIEQGRQEPTMTQAELGKEIGETAATVASYERGTATPDQNILSKMERVLNVKLRGANI........ 97
59 -21.8005a7l_A mol:protein length:80 CI  ali model follow..  12  3............TDTSNRLKQIMAERNLKQVDILNLIKLSKSTLSQYVNSVQSPDQNRIYLLAKTLGVSEAWLM......... 73
60 -21.6002aw6_A mol:protein length:317 PrgX  ali model follow..  21  2............FKIGSVLKQIRQELNYHQIDLYSGI-MSKSVYIKVEADSRPISVEELSKFSERLGVNFFEILNRAGMNTKS 71
61 -21.5002qfc_A mol:protein length:293 PlcR protein  ali model follow..  19  4............EKLGSEIKKIRVLRGLTQKQLSENI-CHQSEVSRIESGAVYPSMDILQGIAAKLQIPIIHFYEVLIYS... 70
62 -21.5003rzz_A mol:protein length:446 Hydroxyethylphoshphonate Dioxygenase (PhpD)  ali model follow..  13  1........GSHMRIDPFKLAHWMNARKYTAAQTADLAGLPLDDLRRLLGDEAEPDPAAATALAEALSVEPSQLAADAHRN... 73
63 -21.4003zhi_A mol:protein length:83 CI  ali model follow..  11  4............TDTSNRLKQIMAERNLKQVDILNLIKLSKSTLSAYVASVQSPDQNRIYLLAKTLGVSEAWLM......... 74
64 -21.0003zhm_A mol:protein length:79 CI  ali model follow..  12  2............TDTSNRLKQIMAERNLKQVDILNLIKLSKSTLSQYVNSVQSPDQNRIYLLAKTLGVSEAWLM......... 72
65 -20.9004yv6_A mol:protein length:284 Transcriptional regulator  ali model follow..  14  2...........DKELGKTLRRLRQGKQVSISSLADEH-LSKSQISRFERGESEISCSRLLNLLDKLNITIDEFVSTHSK.... 68
66 -20.3004ryk_A mol:protein length:306 Lmo0325 protein  ali model follow..  18  2............GSYGELIREIRLSKGLTQKEVYTGI-ISRSYAIGFEKGKHEITLSLFEEILKRIMVPLDEFFFIYRD.... 67
67 -20.2005fd4_A mol:protein length:324 ComR  ali model follow..  10  21..........NDKEFGQRVRQLRESASMTREQFCDELELSVRQLTRIEAGASKPTFSKIQYIATRLGMGLYELMPDYVSLPER 94
68 -19.9002a6c_A mol:protein length:83 Helix-turn-helix motif  ali model follow..  23  1..MGSDKIMKMRSQLLIVLQEHLRNSGLTQFKAAELLGVTQPRVSDLMRGKDLFSLESLIDMITSIGLKVE............ 70
69 -19.7005jub_A mol:protein length:310 Transcriptional regulator  ali model follow..  10  2.........NLKDSIGLRIKTERERQQMSREVLCLGAELTVRQLIRIEKGESLPSLDRLSYIAKRLGKSMTELLDQDNITIPD 76
70 -19.5005v5t_A mol:protein length:306 Conserved domain protein  ali model follow..  13  6..........EYRPLGEEIERIRKGKNIPLRVFDE--GVSSRSYQRFVQGNSELRISDLAIIVEILSISPMEMTEKLTPMSKT 77
71 -19.3003bdn_A mol:protein length:236 Lambda Repressor  ali model follow..  13  1.STKKKPLTQEQRRLKAIYEKKKNELGLSQESVADKMGMGQSGVGALFNGINALNAYNAALLAKILKVSVEEFSPSIAREIYE 86
72 -18.4004yba_A mol:protein length:99 Regulatory protein C  ali model follow..  16  4........NHIKNMTPEICKASRALVNLTQKELALMAGIATPTIADFERGARKPHGNNLRSIIIAFENKGLDFVEE....... 71
73 -18.3005y69_A mol:protein length:151 chain A  ali model follow..  17  2............SMTIKLLDEFLKKHDLTRYQLSKLTGISQNTLKDQNEKPNKYTVSILRSLSMISGLSVSDVLFELED.... 69
74 -18.3002o38_A mol:protein length:120 Hypothetical protein  ali model follow..  28  41..............LAYALNAVIDRARLSQAAAAARLGINQPKVSALRNYKEGFSVERLMTLLNALDQDVE............ 98
75 -17.6002mqk_A mol:protein length:65 ATP-dependent target DNA activator B  ali model follow..  14  6............SDIRAGLRTLVENEETTFKQIALESGLSTGTISSFINDKYNGDNERVSQTLQRW................. 59
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.

Pawlowski K, Pio F, Chu Z, Reed JC, Godzik A. PAAD - a new protein domain associated with apoptosis, cancer and autoimmune diseases. Trends Biochem Sci. 2001 Feb;26(2):85-7.