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Query: d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}, from SCOP207

Results of FFAS03 search in SCOP207
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 GGDAWSRARQKAAEKVRDVAAELLDIYAQRAAKEGFAFKHDREQYQLFCDSFPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMISRFRSAKEQTQILAEVAEGKIDILIGTHKLLQSDVKFKDLGLLIVDEEHRFGVRHKERIKAMRANVDILTLTATPIPRTLNMAMSGMRDLSIIATLast
1 -122.000d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}  ali model 3D-neighbors  100  1GGDAWSRARQKAAEKVRDVAAELLDIYAQRAAKEGFAFKHDREQYQLFCDSFPFETTPDQAQAINAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAFLAVDNHKQVAVLVPTTLLAQQHYDNFRDRFANWPVRIEMISRFRSAKEQTQILAEVAEGKIDILIGTHKLLQSDVKFKDLGLLIVDEEHRFGVRHKERIKAMRANVDILTLTATPIPRTLNMAMSGMRDLSIIAT 233
2 -68.000d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}  ali model 3D-neighbors follow..  35  37........ERLAYEELFVLQLAFQKIRKEREKHGGIPKKIEGKLAEEFIKSLPFKLTNAQKRAHQEIRNDMISEKPMNRLLQGDVGSGKTVVAQLAILDNYEAGFQTAFMVPTSILAIQHYRRTVESFSKFNIHVALLIGATTPSEKEKIKSGLRNGQIDVVIGTHALIQEDVHFKNLGLVIIDEQHRFGVKQREALMNKGKMVDTLVMSATPIPRSMALAFYGDLDVTVIDE 261
3 -21.600d1yksa1 c.37.1.14 (A:187-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}  ali model 3D-neighbors follow..  15  9...............................................................................VLDFHPGAGKTRRFLQILAECARRRLRTLVLAPTRVVLSEMKEAFHGLDVKFHTQA-----FSAHGSGREVIDAMCHATL-------YRMLEPTRVVNWEVIIMDEAHSIAARGWAAHRARANESATILMTATP.................... 137
4 -18.200d1rifa_ c.37.1.23 (A:) DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]}  ali model 3D-neighbors follow..  19  106...............................................YSGNKRIEPHWYQKDAVFEGLVNRRR------ILNLPTSAGRSLIQALLARYYLENEGKILIIVPTTALTTQMADDFVDYRLFSHAMIKKIGGGASKDDKYKNDA-------PVVVGTWQTVVKQPKFSQFGMMMNDECHLAGKSISSIISGLNNCMFKFGLSGSL.................... 262
5 -17.600d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}  ali model 3D-neighbors follow..  24  18......................................................................YAKCKETNCLIVLPTGLGKTLIAMMIAEYRLTYGGKVLMLAPTKPLVLQHAESFRRLFNLPPEKIVALTGEKSPEERSKAWARAK-----VIVATPQTIENDLLLEDVSLIVFDEAHRAVGNYAREYKRQAKNPLVIGLTASPVINNLGIEHIEYRS...... 189
6 -16.500d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}  ali model 3D-neighbors follow..  22  30...........................................................QAEAVEKVFSG-------NLLLAMPTAAGKTLLAEMAMVREAIKGGKSLYVVPLRALAGEKYESF-KKWEKIGLRIGISTGDYESRDEH--------GDCDIIVTTSEKADSLIRIKAVSCLVVDEIHLLDSEKRTKMRRMNKALRVIGLSAT..................... 181
7 -15.900d1gkub1 c.37.1.16 (B:6-250) Helicase-like "domain" of reverse gyrase {Archaeoglobus fulgidus [TaxId: 2234]}  ali model 3D-neighbors follow..  17  38......................................................EPRAIQKMWAKRILRK------ESFAATAPTGVGKTSFGLAMSLFLALKGKRCYVIFPTSLLVIQAAETIRKYAEKAGVGTENLIGYYHGRIPKREKENFMQRNFKIVITTQFLSKHYRELGHFDFIFVDDVDAFHYDLKTKSWVGEARGCLMVSTATAKKGKKAELFRQLLNFDI... 226
8 -15.500d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}  ali model 3D-neighbors follow..  22  61.............................................PTPYFDAEISLRDYQEKALERWLVDKRG------CIVLPTGSGKTHVAMAAINEL---STPTLIVVPTLALAEQWKERLGIFG----------------EEYVGEFSGRIKELKPLTVSTYDSAYVNAEKNRFMLLIFDEVHHLPAESYVQIAQMSIAPFRLGLTATF.................... 205
9 -15.100d2pl3a1 c.37.1.0 (A:47-278) automated matches {Human (Homo sapiens) [TaxId: 9606]}  ali model 3D-neighbors follow..  22  47........................................................TEIQKQTIGLALQG------KDVLGAAKTGSGKTLAFLVPVLEALTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAERINN-----INILVCTHMDETVSFHATDLQMLVLDEADRFADTMNAVIENLPKKRQTLLFSATQTKSVKDLARLSLKNPEYVWV 230
10 -13.700d3bera_ c.37.1.0 (A:) automated matches {Human (Homo sapiens) [TaxId: 9606]}  ali model 3D-neighbors follow..  22  36......................................................KPTKIQIEAIPLALQG------RDIIGLAETGSGKTGLPILNALLETPQRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLALAK----KPHIIIATHLENTKGFNLRALKYLVMDEADRFETEVDKILKVIPRDRKTFLFSATMTKKVQKLQRAALKNPVKCAV 218
11 -13.700d1z63a1 c.37.1.19 (A:432-661) Helicase of the SNF2/Rad54 hamily {Sulfolobus solfataricus [TaxId: 2287]}  ali model 3D-neighbors follow..  18  32............................................................................FGICLADDMGLGKT-IAVFSDAKKENELTPSLVICPLSVLK-----NWEEELSKFAPHLRFAVFHEDRSKIK--------EDYDIILTTYAVLLRDTRLKEVKYIVIDEAQNIKNPQTKIFKAVKE----IALTGTPIENKV............... 167
12 -13.600d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}  ali model 3D-neighbors follow..  15  12...............................................................................HLHAPTGSGKS---TKVPAAYAAQGYKVLVLNPSVAATLGFGAYMSKAHG------------VDPNIRTGVRTITTGSPITYSTYGKFLADGGCSGGAYDIIICDECHSLGIGTVLDQAETAGARLVVLATATP.................... 136
13 -13.200d1qdea_ c.37.1.19 (A:) Initiation factor 4a {Baker`s yeast (Saccharomyces cerevisiae) [TaxId: 4932]}  ali model 3D-neighbors follow..  19  32......................................................EPSAIQQRAIMPIIEG------HDVLAQAQSGTGKTGIAALQRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAEGLRD-----AQIVVGTDNIQRRRFRTDKIKMFILDEADEFKEQIYQIFTLLPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILV 212
14 -13.200d1t6na_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo sapiens) [TaxId: 9606]}  ali model 3D-neighbors follow..  18  23......................................................HPSEVQHECIPQAILG------MDVLCQAKSGMGKTAVFVLATLQQLEPVTSVLVMCHTRELAFQISKEY-ERFSKYMPNVKVAVFFGGLSIKKD-EEVLKKNCPHIVVGTALARNKSLNLKHIKHFILDECDKMRRDVQEIFRMTPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFV 207
15 -13.000d2z0ma1 c.37.1.0 (A:1-192) automated matches {Sulfolobus tokodaii [TaxId: 111955]}  ali model 3D-neighbors follow..  17  16......................................................NFTEVQSKTIPLMLQG------KNVVVRAKTGSGKT-----AAYPILELGMKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVRN-----ADIVVATDLWSKGVIDLSSFEIVIIDEADLFIDDIKIILAQTSNRKITGLFSATIPEEIRKVVKDFITNYEEIEA 190
16 -12.600d3dkpa1 c.37.1.0 (A:139-378) automated matches {Human (Homo sapiens) [TaxId: 9606]}  ali model 3D-neighbors follow..  18  49......................................................MPTPIQMQAIPVMLHG------RELLASAPTGSGKTLAFSIPILMQLKKGFRALIISPTRELASQIHRELIKISEGTGFRIHMIHKAAVAAKK---FGPKSSKKFDILVTT-RLIPPGIDLASVEWLVVDESDKL-TGFRDQLASIFLACRRAMFSATFAYDVEQWCKLNLDNVISVSI 238
17 -12.500d1oywa2 c.37.1.19 (A:1-206) RecQ helicase domain {Escherichia coli [TaxId: 562]}  ali model 3D-neighbors follow..  20  1...............................MAQAEVLNLESGAKQVLQETFGYQQRPGQEEIIDTVLSG------RDCLVVMPTGGGK---SLCYQIPALLLNGLTVVVSPLISLMKDQVDQLQAN----GVAAACLNSTQTREQQLEVMTGCRTGQIRLLYIAPERLMLDLAHWNPVLLAVDEAHRPEYAALGQLRQRFPTLPFMALTATADDTTRQVRLLGLNDPLIQIS 206
18 -12.200d2oxca_ c.37.1.0 (A:) automated matches {Human (Homo sapiens) [TaxId: 9606]}  ali model 3D-neighbors follow..  18  23......................................................RPSPVQLKAIPLGRCG------LDLIVQAKSGTGKTCVFSTIALDSLVLENQILILAPTREIAVQIHSVITAIGIKMELECHVFIGGTPLSQDKTRLKK-----CHIAVGSQLIELDYLNPGSIRLFILDEADKFQEQINWIYSSLPASKQMLAVSATYPEFLANALTKYMRDPTFVRL 205
19 -12.000d2i4ia3 c.37.1.0 (A:168-406) automated matches {Human (Homo sapiens) [TaxId: 9606]}  ali model 3D-neighbors follow..  20  35......................................................RPTPVQKHAIPIIKEK------RDLMACAQTGSGKTAAFLLPILSQIYQYPISLVLAPTRELAVQIYEEARKFSYRSRVRPCVVYGGADIGQQ---IRDLERG-CHLLVATPGRLRGKIGLDFCKYLVLDEADRLDMGFEPQIRRI---VEQDTMPPKGVRHTMMFSATFPKEIQMLA. 226
20 -11.900d1q0ua_ c.37.1.19 (A:) Probable DEAD box RNA helicase YqfR {Bacillus stearothermophilus [TaxId: 1422]}  ali model 3D-neighbors follow..  18  23......................................................KPTEIQERIIPGALRG------ESMVGQSQTGTGKTHAYLLPIMEKIKPERQAVITAPTRELATQIYHETLKITKFCPKDRMIVARCLIGGTDKQKALEKLNVQPHIVIGTDFIREQALDVHTAHILVVDEADLFITDVDQIAARMPKDLQMLVFSATIPEKLKPFLKKYMENPTFVHV 208
21 -11.800d4ct4b1 c.37.1.0 (B:95-301) automated matches {Human (Homo sapiens) [TaxId: 9606]}  ali model 3D-neighbors follow..  17  24......................................................KPSPIQEESIPIALSG------RDILARAKNGTGKSGIPLLERLDLKKDNIQAMVIVPTRELALQVSQIC-IQVSKHMGGAKVMATTGGTNLRDD-IMRLDDT-VHVVIATDLIKKGVAKVDHVQMIVLDEADKFVQIMEDIILTLPKNRQILLYSATFPLSVQKFMNSHLQKPYEINL 206
22 -11.800d3peya1 c.37.1.0 (A:91-286) automated matches {Baker`s yeast (Saccharomyces cerevisiae) [TaxId: 4932]}  ali model 3D-neighbors follow..  15  24......................................................KPSKIQERALPLLLHN----PPRNMIAQSQSGTGKTALTMLTRVNPEDASPQAICLAPSRELARQTLEVVQE-----------MGKFTKITSQLIVPDSFEKNKAQVIVGTDLMRRKLMQLQKIKIFVLDEADNLGDQCIRVKRFLPKDTQLVLFSATFADAVRQYA............ 192
23 -11.500d3mwja_ c.37.1.0 (A:) automated matches {Thermus thermophilus [TaxId: 262724]}  ali model 3D-neighbors follow..  18  23......................................................TPTPIEAAALPLALEG------KDLIGQARTGTGKTLAFALPIAERLAPSQRALVLTPTRELALQ----VASELTAVAPHLKVVAVYGGTGYGKQ-KEALLRG-ADAVVATDYLRQGVLDLSRVEVAVLDEADEFEEEVEALLSATPPSRQTLLFSATLPSWAKRLAERYMKNPVLINV 205
24 -11.500d1gm5a4 c.37.1.19 (A:550-755) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}  ali model 3D-neighbors follow..  16  10....................................................................................VPMDRVNEVYEFVRQEVMRGGQAFIVYPLI--AVEMYEYLSKEVFP-EFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVST-TVIEVGIDVPRANVMVIENPERFGLAQLHQLR................................... 129
25 -11.300d3iuya1 c.37.1.0 (A:213-439) automated matches {Human (Homo sapiens) [TaxId: 9606]}  ali model 3D-neighbors follow..  22  41......................................................KPTPIQSQAWPIILQG------IDLIVVAQTGTGKTLSYLMPGFIHLDNGPGMLVLTPTRELALHVEAE-CSKYSYKGLKSICIYGGRNRNGQ---IEDISKG-VDIIIATDLQMNNSVNLRSITYLVIDEADKFEPQIRKILLDVRPDRQTVMTSATWPDTVRQLALSYLKDPMIVYV 227
26 -10.600d5gvra_ c.37.1.0 (A:) automated matches {Human (Homo sapiens) [TaxId: 9606]}  ali model 3D-neighbors follow..  18  35......................................................HPTPIQIQGIPTILSG------RDMIGIAFTGSGKTLVFTLPVIMFCLEGPYGLIICPSRELARQTHGIYCRLLQEDSSPLLRCALCIGGMSVKEQMETIRHG-VHMMVATDLLQKKMVSLDICRYLALDEADRFEGDIRTIFSYFKGQRQTLLFSATMPKKIQNFAKSALVKPVTINV 230
27 -10.500d1z3ix2 c.37.1.19 (X:92-389) Rad54-like, Rad54L {Zebrafish (Danio rerio) [TaxId: 7955]}  ali model 3D-neighbors follow..  17  58.........................................................PHQREGVKDCVTGRRIENSYGCIMADEMGLGKTLQCITLIWTLLKQSDKVIVVSPSSLVYNEVGKWLGGRVQPVAIDGGSKDEIDSKLVNFISQQGMRIPTPILIISTFRLHAEVLHKGKVGLVICDEGHRLDNQTYLALNSMNAQRRVL-ISGTPIQNDLLFSLVHFVNSGILGT 252
28 -9.810d1c4oa2 c.37.1.19 (A:410-583) Nucleotide excision repair enzyme UvrB {Thermus thermophilus [TaxId: 274]}  ali model 3D-neighbors follow..  15  15.......................................................................................NQILDLMEGIRERAARGERTLVTVLT----VRMAEELTSFLVEHGIRARYLHHELDAFKRQALIRDLRLGHYDCLVGIN-LLREGLDIPEVSLVAILDADKEGFLRSER..................................... 118
29 -9.440d5y4za1 c.37.1.14 (A:178-481) automated matches {Zika virus (strain mr 766) [TaxId: 64320]}  ali model 3D-neighbors follow..  19  14...............................................................................VLDLHPGAGKRRVLPEIVREAIKKRLRTVILAPTRVVAAE----MEEALRGLPVRYMT-TAVNVTHSGTEIVDLMCHATF-------SRLLQPIRVPNYNLNIMDEAHFTDPSSIAARGYISTRVEAIFMTATP.................... 142
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.

Luz JG, Hassig CA, Pickle C, Godzik A., Meyer BJ, Wilson IA. XOL-1, primary determinant of sexual fate in C. elegans, is a GHMP kinase family member and a structural prototype for a class of developmental regulators. Genes Dev. 2003 Apr 15;17(8):977-90. Epub 2003 Apr 02.