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d1a1va1
Query: d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}, from SCOP175

Results of FFAS03 search in SCOP175
Master-slave alignment 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 PPAVPQSFQVAHLHAPTGSGKSTKVPAAYAAQGYKVLVLNPSVAATLGFGAYMSKAHGVDPNIRTGVRTITTGSPITYSTYGKFLADGGCSGGAYDIIICDECHSTDATSILGIGTVLDQAETAGARLVVLATATPLast
1 -91.200d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}  ali model 3D-neighbors  100  1PPAVPQSFQVAHLHAPTGSGKSTKVPAAYAAQGYKVLVLNPSVAATLGFGAYMSKAHGVDPNIRTGVRTITTGSPITYSTYGKFLADGGCSGGAYDIIICDECHSTDATSILGIGTVLDQAETAGARLVVLATATP 136
2 -46.100d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}  ali model 3D-neighbors follow..  19  2..HMLKKGMTTVLDFHPGAGKTRRFLPQILRRRLRTLVLAPTRVVLSEMKEAFHGL-DVKFHTQAFSAHGSGREVIDAMCHATLTYREPTRVVNWEVIIMDEAHFLDPASIAARGWAAHRAR-ANESATILMTATP 139
3 -45.600d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}  ali model 3D-neighbors follow..  19  4..DIFRKKRLTIMDLHPGAGKTKRYLPAIVREGLRTLILAPTRVVAAEMEEALRGLPIRYQTPAIRAEHT-GREIVDLMCHATFTMRSPIRVPNYNLIIMDEAHFTDPASIAARGYISTRVE-MGEAAGIFMTATP 141
4 -22.700d1rifa_ c.37.1.23 (A:) DNA helicase UvsW {Bacteriophage T4 [TaxId: 10665]}  ali model 3D-neighbors follow..  14  127......VNRRRILNLPTSAGRSL-ARYYLENYEGKILIIVPTTALTTQMADDFVDMIKKIGGGASKDDKYKNDAPVVVGTWQTVVKQPKEWFSQFGMMMNDECHLATGKSISSI-----ISGLNNCMFKFGLSGSL 262
5 -22.600d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}  ali model 3D-neighbors follow..  24  89...........CIVLPTGSGKTHVAMAAINELSTPTLIVVPTLALAEQWKERLGIFGEEYVGEFSGRIKEL--KPLTVSTYDSAYVNAEKLGNRFMLLIFDEVHHLPAES------YVQIAQMSIAPFRLGLTATF 205
6 -21.700d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}  ali model 3D-neighbors follow..  20  23.......ETNCLIVLPTGLGKTL-AEYRLTKYGGKVLMLAPTKPLVLQHAESFRRLFNLPPEKIVALTKAWARAKVIVATPQTILLAGRISLEDVSLIVFDEAHRAVGNYAYV-FIAREYKRQAKNPLVIGLTASP 166
7 -19.800d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}  ali model 3D-neighbors follow..  18  59........ESFAATAPTGVGKTS-MSLFLALKGKRCYVIFPTSLLVIQAAETIAEKAGVGTENLIGYMQNLRNFKIVITTTQ-FLSKHYRELGHFDFIFVDDVDAISKNVDKLLHLLTKSWVGEARGCLMVSTAT. 213
8 -17.500d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}  ali model 3D-neighbors follow..  22  39......SGKNLLLAMPTAAGKTLLAEMAMVRKGGKSLYVVPLRALAGEKYESFKKKIGLRIGISTGDYEHLGDCDIIVTTSDSLIRNRASWIKAVSCLVVDEIHLLDSEK-TLEILVTKMRRMNKALRVIGLSAT. 181
9 -15.700d1gm5a3 c.37.1.19 (A:286-549) RecG helicase domain {Thermotoga maritima [TaxId: 2336]}  ali model 3D-neighbors follow..  16  108...........LLQGDVGSGKTVVAQLAIYEAGFQTAFMVPTSILAIQHYRRTVEKFNIHVALLIGATTPLRNGQIDVVIGTHALIQEDVHFKNLGLVIIDEQHR------FGVKQREALMNKGKMVDTLVMSATP 241
10 -13.700d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker`s yeast (Saccharomyces cerevisiae) [TaxId: 4932]}  ali model 3D-neighbors follow..  19  50.....GVFRAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLN---------------GKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICN... 162
11 -13.400d1hv8a1 c.37.1.19 (A:3-210) Putative DEAD box RNA helicase {Archaeon Methanococcus jannaschii [TaxId: 2190]}  ali model 3D-neighbors follow..  17  36.PLFLNDEYNIVAQARTGSGKTASIELVNENNGIEAIILTPTRELAIQVADEIES--GKAIYPQIK---ALKNANIVVGTPGRIINRGTLNLKNVKYFILDEADEMNMGFIKDVEKILNACNKDKRILLFSATMPR 188
12 -13.300d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {Escherichia coli [TaxId: 562]}  ali model 3D-neighbors follow..  16  80...........LVCGDVGFGKTMRAAFLAVDNHKQVAVLVPTTLLAQQHYDNFRDRFANWP-VRIEMISRFRSAKIDILIGTHKLLQSDVKFKDLGLLIVDEEHR------FGVRHKERIKAMRANVDILTLTATP 213
13 -13.000d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}  ali model 3D-neighbors follow..  14  158..AVALTRRISVISGGPGTGKTTTVAKLLAGERCRIRLAAPTGKAAARLTESLGKPLTDEQKKRIPEDASTLHRLLGAQPGSQRLRHHAGNPLHLDVLVVDEASMIDLP---MMSRLIDALPDHARVIFL...... 294
14 -13.000d1t6na_ c.37.1.19 (A:) Spliceosome RNA helicase BAT1 (UAP56) {Human (Homo sapiens) [TaxId: 9606]}  ali model 3D-neighbors follow..  17  33.PQAILG-MDVLCQAKSGMGKTAVFVLATLQQ--SVLVMCHTRELAFQISKEYERFSKYMPNVKV--VLKKNCPHIVVGTPGRIARNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEKQVMMFSAT. 186
15 -12.800d1wrba1 c.37.1.19 (A:164-401) putative ATP-dependent RNA helicase VlgB {Flatworm (Dugesia japonica) [TaxId: 6161]}  ali model 3D-neighbors follow..  18  53..PAILEHRDIMACAQTGSGKTAAFQRYSKTAYPKCLILAPTRELAIQISQKFSLNTPLRSCVVYGGADT-MGCHLLVATPGRFIEKNKISLEFCKYIVLDEA---DRMLDMGFEPQIRKIPSGINRQTLMFSAT. 216
16 -12.400d1q0ua_ c.37.1.19 (A:) Probable DEAD box RNA helicase YqfR {Bacillus stearothermophilus [TaxId: 1422]}  ali model 3D-neighbors follow..  14  33..PGALRGESMVGQSQTGTGKTHAYLLPIMEK--QAVITAPTRELATQITKFCPKDRMIVARCLIGGTDK-VQPHIVIGTPGRIIREQALDVHTAHILVVDEADLM-----LDMGFITDVARMPKDLQMLVFSAT. 187
17 -12.300d1veca_ c.37.1.19 (A:) DEAD box RNA helicase rck/p54 {Human (Homo sapiens) [TaxId: 9606]}  ali model 3D-neighbors follow..  14  35..PIALSGRDILARAKNGTGKSGAYLIPLLER--QAMVIVPTRELALQVSQICIQVSKHMGGAKVDIMRLDDTVHVVIATPGRILKKGVAKVDHVQMIVLDEADKLSQDFVQIMEDIILTLPKNRQILLYSAT... 186
18 -12.200d1g5ta_ c.37.1.11 (A:) ATP:corrinoid adenosyltransferase CobA {Salmonella typhimurium [TaxId: 90371]}  ali model 3D-neighbors follow..  15  1......ERGIIIVFTGNGKGKTTGTAARAVGHGKNVGVVQFIKGTWPNGERNLLEPHGVEMATGFTWETQNREADTAACMAVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITG.. 134
19 -12.100d1z63a1 c.37.1.19 (A:432-661) Helicase of the SNF2/Rad54 hamily {Sulfolobus solfataricus [TaxId: 2287]}  ali model 3D-neighbors follow..  16  35...........CLADDMGLGKTLQTIAVFSDAKKESLVICPLSVLKEEELSKFAPHLRFAVFHEDRSKIKLEDYDIILTTYAVLLRDTRLKEVEWKYIVIDEAQNIKNPQTKIFKAVKELKSKY----RIALTGTP 162
20 -12.000d1qdea_ c.37.1.19 (A:) Initiation factor 4a {Baker`s yeast (Saccharomyces cerevisiae) [TaxId: 4932]}  ali model 3D-neighbors follow..  18  48........HDVLAQAQSGTGKTGTFSIAALQR--QALMLAPTRELALQIQKALAFHMDIKVHACIGGTSGLRDAQIVVGTPGRVIQRRRFRTDKIKMFILDEADEM-----LSSGFKEQIYQLPPTTQVVLLSAT. 191
21 -11.100d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}  ali model 3D-neighbors follow..  10  1.......NKVVVVTGVPGVGSTTLAMDNLRKEGVNYKMVSFGSVMFEVAKEE---------NLVSDRDQMRKMDPETQKRIQKMAGRKIAEMAKESPVAVDTHSTVSTPKGYLPGLPSWVLNELNPDLIIVVETTG 123
22 -11.100d1z3ix2 c.37.1.19 (X:92-389) Rad54-like, Rad54L {Zebra fish (Danio rerio) [TaxId: 7955]}  ali model 3D-neighbors follow..  16  83...........IMADEMGLGKTLQCITLIWTL-DKVIVVSPSSLVPVAIDGGSKDEIDSKLVNFISQQGMRIPTPILIISYETFRLHAEVLHKKVGLVICDEGHRLKNSDNQTYLALNSMNAQRR----VLISGTP 230
23 -11.100d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}  ali model 3D-neighbors follow..  17  2........RHVFLTGPPGVGKTTLIHKASERIGFDVVTLSGTRGPLSRVGLEPPPGKRCRVGQYVVDLTSFEQLALPVLRNAD-----CSSGPGQRVCVIDEIGKMELFSQLFIQAVRQTLSTPGTIILGTIPVP. 146
24 -11.100d1yj5a2 c.37.1.1 (A:351-522) 5` polynucleotide kinase-3` phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}  ali model 3D-neighbors follow..  14  4PESSSPNPEVVVAVGFPGAGKSTFIQEHLVSAGYVHVNRD-------TLGSWQRCVSSCQAALRQGKRVVIDNTNPDVPSRARYIQCAKDAGVPCRCFNFC................................... 100
25 -11.000d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}  ali model 3D-neighbors follow..  12  3..........IIITGEPGVGKTTLVKKIVERLGKRAIGFWTEEVRDPETKKRTGFRIITLVGSYGVNVQYFEELAIPILERAYREAKK----DRRKVIIIDEIGKMELFSKKFRDLVRQIMHDPNVNVVATIPIR. 140
26 -10.700d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}  ali model 3D-neighbors follow..  12  3........KIILTIGCPGSGKST-WAREFIAKNPGFYNINRDDYRQSIMAHEERDEYKYTKKKEGIVTGMQFDTAKSILYGGDSVKG----------VIISDTNLNPER----RLAWETFAKEYGWKVEHKVFDVP 115
27 -10.500d1oywa2 c.37.1.19 (A:1-206) RecQ helicase domain {Escherichia coli [TaxId: 562]}  ali model 3D-neighbors follow..  17  41........RDCLVVMPTGGGKSLQIPA-LLLNGLTV-VVSPLISLMKD-AACLNSTQTREQQLEVMTGCRTGQIRLLYIAPERLMLDNFLEH-NPVLLAVDEAHCISQ-----YAALGQLRQRFPTLPFMALTAT. 183
28 -10.100d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker`s yeast (Saccharomyces cerevisiae) [TaxId: 4932]}  ali model 3D-neighbors follow..  12  36..........LLLYGPNGTGKKTRCMALLES-DVRQFVTASNRKLELNVVSS-PYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMS. 172
29 -9.870d2axpa1 c.37.1.1 (A:2-165) Hypothetical protein YorR {Bacillus subtilis [TaxId: 1423]}  ali model 3D-neighbors follow..  20  1........TLIILEGPDCCFKST-------------------------VAAKLSK--------ELKYPIIKGSSFELAKSGNEKLFEHFNKLADEDNVIIDRFVYSNL............................ 67
30 -9.840d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}  ali model 3D-neighbors follow..  19  2.........LIAIEGVDGAGKRTLLSGAFRAAGRSVATLAPR-VAADIAAEALHGEHGDLASSVYAMATLFALDRAG-------VHTIQGLCRGYDVVILDR.................................. 95
31 -9.780d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}  ali model 3D-neighbors follow..  11  1.....RRGALIVLEGVDRAGKSTQLVEALCAAGHRAELLR--------------FPERSTEIGKLLSSYLQKKSDVEDHSVHLLFSANREKLSQGVTLVVDR.................................. 94
32 -9.730d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}  ali model 3D-neighbors follow..  16  5........NILLLSGHPGSGKSTIAEALANLPGVPKVHFHSDDLWGYIKHGRIDPWLPQSHQQNRMIMQIAADVAGRYAKEG...................................................... 78
33 -9.670d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}  ali model 3D-neighbors follow..  13  8........KTVAILGGESSGKSV-LVNKLAAVFNTTSAWEYGREFVFEKLGGDEQAM----------------SDYPQMALGHQRYIDYAVRHSHKIAFIDT.................................. 86
34 -9.630d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}  ali model 3D-neighbors follow..  12  6.....NIPPYLFFTGKGGVGKTSATAIRLAEQGKRVLLTDPASNVGQVFSQTIGNTIQAIASVPGLSALEIDPQAAAQQYRARIVDPIKGVLPDDVVSSINEQLSGACTTEIAFTGLLTDASLLTRFDHIIFDTAP 145
35 -9.450d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}  ali model 3D-neighbors follow..  17  2........KIGIVTGIPGVGKSTKVKEILDNQGINNKIIN-----YGDFMLATALKLGYAKDRDEMRKLSVEKQKKLQIDAAKGIAEEARAGGE-GYLFIDTHAVIRTPSGYLPGLPSYVITEINPSVIFLLEADP 126
36 -9.440d1ecfa1 c.61.1.1 (A:250-492) Glutamine PRPP amidotransferase, C-terminal domain {Escherichia coli [TaxId: 562]}  ali model 3D-neighbors follow..  19  13PDSFIDKISVYSARVNMGTKLGEKIAREWEDLDIDVVIPIPSCDIALEIARILGKPYGFVKNRYVGRTFIMPGQQLRRKSVRRKLNANRAEFRDKNVLLVDDSIVRGTTS------IIEMAREAGAKKVYLASAAP 148
37 -9.300d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}  ali model 3D-neighbors follow..  11  7.....TQPFTVLIEGNIGSGKTTYLNHFEKYKNDICLLTEPVEKWRNVNGVNLLELMYKDPPFQSYVTLTMLQSHTAPTNKKLKIMERSIFSARY--CFVENMRRNGSLEQGWYKFIEESIHVQADLIIYLRTSPE 147
38 -9.110d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}  ali model 3D-neighbors follow..  20  35.........MVYLNGDLGAGKTTLTRGMLQGIGHQGNVKSPTYTLVEEY....................................................................................... 74

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.

Alexey M. Eroshkin, Andrew LeBlanc, Dana Weekes, Kai Post, Zhanwen Li, Akhil Rajput, Sal T. Butera, Dennis R. Burton, Adam Godzik. bNAber: database of broadly neutralizing HIV antibodies. Nucl. Acids Res. 2013; published on November 7, 2013.

Friedberg I, Godzik A. Functional differentiation of proteins: implications for structural genomics. Structure. 2007 Apr;15(4):405-15.