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Query: IDP06076 gene: dnaN; DNA polymerase III subunit beta [Helicobacter pylori J99] NP_223170 [Helicobacter pylori J99], from CSGID

Results of FFAS03 search in CSGID
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 MKISVSKNDLENTLRYLQAFLDKKDASSIASHIHLEVIKEKLFLKASDSDIGLKSYISTQSTDKEGVGTINGKKFLDIISCLKDSNIVLETKDDSLVIKQNKSSFKLPMFDADEFPEFPVIDPKVSLEINAPFLVDAFKKIAPVIEQTSHKRELAGVLMQFNQKHQTLSVVGTDTKRLSYTQLEKISIHSTEEDISCILPKRALLEILKLFYENFSFKSDGMLAVVENETHAFFTKLIDGNYPDYQKILPKEYTSSFTLGKEEFKEGIKLCSSLSSTIKLTLEKNNALFESLDSEHSETAKTSVEIEKGLDIEKAFHLGVNAKFFLEALNALGTTQFVLKCNEPSSPFLIQEPLDEKQSHLNAKISTLMMPITLLast
1 -119.000IDP06076 gene: dnaN; DNA polymerase III subunit beta [Helicobacter pylori J99] NP_223170 [Helicobacter pylori J99]  ali  100  1MKISVSKNDLENTLRYLQAFLDKKDASSIASHIHLEVIKEKLFLKASDSDIGLKSYISTQSTDKEGVGTINGKKFLDIISCLKDSNIVLETKDDSLVIKQNKSSFKLPMFDADEFPEFPVIDPKVSLEINAPFLVDAFKKIAPVIEQTSHKRELAGVLMQFNQKHQTLSVVGTDTKRLSYTQLEKISIHSTEEDISCILPKRALLEILKLFYENFSFKSDGMLAVVENETHAFFTKLIDGNYPDYQKILPKEYTSSFTLGKEEFKEGIKLCSSLSSTIKLTLEKNNALFESLDSEHSETAKTSVEIEKGLDIEKAFHLGVNAKFFLEALNALGTTQFVLKCNEPSSPFLIQEPLDEKQSHLNAKISTLMMPITL 374
2 -101.000IDP90614 DNA polymerase III subunit beta [Vibrio cholerae O1 biovar eltor str. N16961] VC0013 [Vibrio cholerae O1 biovar El Tor str. N16961]  ali follow..  22  1MKFTIERSHLIKPLQQVSGTLGGRASLPILGNLLLKVEENQLSMTATDLEVELISRVTLEGEFEAGSITVPARKFLDICRGLPDSAVITVLEGDRIQVRSGRSRFSLATLPASDFPNIEDWQSEVQVSLTQAELRGLIEKTQFSMANQDVRYYLNGMLFEI--DGTTLRSVATDGHRMAVAQAQLG---ADFAQKQIIVPRKGVLELVKLLEQPVVLQIGHSNLRAEVNHFVFTSKLVDGRFPDYRRVLPQHTSKTLQTGCEELRQAFSRAAILSNEVRVNLADNGMRITANNPEQEEAEELLDVSFEG----EPIEIGFNVSYILDVLNTLRCDNVRVSMSDANASALVENVDDDS-------AMYVVMPIRL 366
3 -94.500IDP04571 DNA polymerase III subunit beta [Bacillus anthracis str. Sterne] BAS0002 [Bacillus anthracis str. Sterne]  ali follow..  22  1MRFSIQKDYLVRSVQDVMKAVSFRTTIPILTGIKVVATEEGVTLTGSDADISIESFIPVEEVKQSGSIVLQAKYFSEIVKKLPKETVEISVENHLTKITSGKSEFNLNGLDSAEYPLLPQIEEHHVFKIPTDLLKHMIRQTVFAVSTSETRPILTGVNWKV--YNSELTCIATDSHRLALRKAKIEGIVD-EFQANVVIPGKSLNELSKILEEMVDIVITEYQVLFRTKHLLFFSRLLEGNYPDTTRLIPAESKTDIFVNTKEFLQAIDRASLLARDVKLSLEQAMLEISSNSPEIGKVVEEVQCEK----DGEELKISFSAKYMMDALKALDSTEIKISFTGAMRPFLIRTVNDES-------IIQLILPVR. 377
4 -6.000IDP04566 putative lipoprotein [Clostridium perfringens ATCC 13124] CPF_1876 [Clostridium perfringens ATCC 13124]  ali follow..  12  74STTEFSDSELTDLFI--LALREEPDAIKDLTGLKVDIENDDINIYVDNIPFQGKLTFTAQSKDGKGFIDISKDTIFKNLQDNSILSFDKTNGDIILSFKDIIKYLQIKSIKVEN-------KIVIVFNGTIPLLSSIFPNL......................................................................................................................................................................................................................................... 220
5 -4.310IDP05025 hypothetical protein BAS4742 [Bacillus anthracis str. Sterne] BAS4742 [Bacillus anthracis str. Sterne]  ali follow..  10  2......KKKFITGMISAALLLS---TLPSIADASIETEDDGIVTEYILSKVDTS-DFDFENFGKEYDFLVNDPVFLQLEEEVSKLRVESVVEKNPFTGELVVKQEILPAIVLGALRVLVSKVGRTAADKAWAVARPYVQKALNSPKQYILEAAKGGMIIQVRSKATGNRVFAIDYHYI.................................................................................................................................................................................................... 178
6 -4.310IDP90513 gene: fabA; 3-hydroxydecanoyl-(acyl carrier protein) YPO1430 [Yersinia pestis CO92]  ali follow..  1..........................................................................................................................................................................MVDKRESYTKEDLEASGRGELFGAGGPPLPAGNMLMMDRIVKMIEDGGSHNKGYVEAELDINPDLWFFGCHFIG-DPVMPGCLGLDAMWQLVGFY-----LGWLGGEGKGRALGVGEVKFTGQVLPDAKKVTYRINFKRVIMRKLIMGVADGEVLVDGKVIYTATDLKVGLFKDTNA........................... 171
7 -4.260IDP05088 LPXTG-motif cell wall anchor domain protein [Bacillus anthracis str. Ames] BA_0871 [Bacillus anthracis str. Ames]  ali follow..  11  367FDVIDKENNVVDTVTTNEKGIAEVKDLPFGDYFVKEISAEGYIKIDAPVKVTIDFVIKNTKKLENGQLKL-LKKDSESGQLLPGAKFDVIDKDGKVVVTDDKGEALSKQLPVGSY-TLKEVEAPKGYELSSSSVSVDVEAEVVKVDANDKTKLLSGAEFEVYKDGKKVAELKTGGYKLSDKEWKV-TIQNEKEVVKVEAENEKILQIIKMDDKDQTKRLAGEGITTDKSGTVKVDGLVPGEYTLEETKAPEGYKALEVTIEVNVVANEVVKQDVLNEKVKEEITGQLEITKVDAKDGTKIDTLTSDENGKAISKELDPG---DYILKEVQALSDKEIEFTISNQKFEVVKLQITNK.................. 808
8 -4.100IDP90779 gene: nusA; transcription elongation factor NusA [Yersinia pestis CO92] YPO3497 [Yersinia pestis CO92]  ali follow..  1.........MNKEILAVVEAVSNEKSLP--REKIFEALETAL-ATATKKKYEQEIEVRVSIDRKTGDFDTFRRW--VAVDEVTMPTREITLDAQFEDPSLQLGDYVEDQIESVTFDRITTQTAKQVIV---QKVREAERAMVVEQFRQYLGQIVTGIVKKVSRDSIALDL---------------------GHNAEAVIGRERPGDRIRGVLYDVRPEARGAQLFVSRSRSEMLVELFRIEVPEIG---------------EELIEIKAAARDPGSRAKIAVKTNDKRIDPVGACVGMRGARVQAVSSELGGERIDIVLWDAQFVINAMAPADVASIVVDEDKHTMDVAVEASN.................... 313
9 -3.990IDP04602 transcription elongation factor NusA [Bacillus anthracis str. Sterne] BAS3667 [Bacillus anthracis str. Sterne]  ali follow..  10  1.........MSTELLDALLVLESEKGIS--KDIIIDAIEAAL-ISAYKRNFNQAQNVRVSFNPQVGTIQVLARK--DVVDNVFDPRLEISVEERQINPNYQDGDVLEIEVTPKDFGRIAAQTAKQVVT---QRVREAERGVIYSEFSDREEDIMVGIVQRQDARFIYVSLGKVEA----------------------LLPVSKPHDRIRVFITKVEKTTKGPQIYVSRTHPGLLKRLFEMEVPEIY---------------DGTVEIRSVAREAGDRSKISVHAENIDVDPVGSCVGPKGQRVQRIVDELKGEKIDIVRWSVEYVANALSPSQVVKVLVDEEEKATTVVVPDHQ.................... 312
10 -3.790IDP04654 gene: idh; isocitrate dehydrogenase [Francisella tularensis subsp. tularensis SCHU S4] FTT1526c [Francisella tularensis subsp. tularensis SCHU S4]  ali follow..  10  1MKFYLQEIFMHKIFYTFTDALATGSFLPIVESFTIELETKDISLSARILILGELAKTPDANIIKLPNISASIPQLTAAIKELQSKGYKIPDYPYE---DDKEQEIKARYAKVLGSAVNPVLREGNSDRRVADAVKKYAEKHVASMSADDFYANEKSYIVP-KATKVKIVHIDTKGTQTVLKDLEEKEIIDATKISIKALREFYKNEIAKAKKEGTLLSLHLKATMMKVSDPILFGHAVEIFFEDIFKKYAKEFKELGVNPRNGWGDAVEKIKQLPQELQDKINADIEKVFAKQPDIA............................................................................. 337

FFAS is supported by the NIH grant R01-GM087218-01
1 4 6 9 1 1   jobs submitted since Jan 1, 2011
Comments and questions to: webmaster

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.

Li W, Godzik A. VISSA: a program to visualize structural features from structure sequence alignment. Bioinformatics. 2006 Apr 1;22(7):887-8. Epub 2006 Jan 24.