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d2nxoa1
Query: d2nxoa1 c.94.1.1 (A:5-281) Hypothetical protein SCo4506 {Streptomyces coelicolor [TaxId: 1902]}, 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 TRPRVGHIQFLNCLPLYWGLARTGTLLDFELTKDTPEKLSEQLVRGDLDIGPVTLVEFLKNADDLVAFPDIAVGCDGPVMSCVIVSQVPLDRLDGARVALGSTSRTSVRLAQLLLSERFGVQPDYYTCPPDLSLMMQEADAAVLIGDAALRANMIDGPRYGLDVHDLGALWKEWTGLPFVFAVWAARRDYAEREPVITRKVHEAFLASRNLSLEEVEKVAEQAARWEAFDEDTLAKYFTTLDFRFGAPQLEAVTEFARRVGPTTGFPADVKVELLKPLast
1 -107.000d2nxoa1 c.94.1.1 (A:5-281) Hypothetical protein SCo4506 {Streptomyces coelicolor [TaxId: 1902]}  ali model 3D-neighbors  100  1TRPRVGHIQFLNCLPLYWGLARTGTLLDFELTKDTPEKLSEQLVRGDLDIGPVTLVEFLKNADDLVAFPDIAVGCDGPVMSCVIVSQVPLDRLDGARVALGSTSRTSVRLAQLLLSERFGVQPDYYTCPPDLSLMMQEADAAVLIGDAALRANMIDGPRYGLDVHDLGALWKEWTGLPFVFAVWAARRDYAEREPVITRKVHEAFLASRNLSLEEVEKVAEQAARWEAFDEDTLAKYFTTLDFRFGAPQLEAVTEFARRVGPTTGFPADVKVELLKP 277
2 -81.600d2i6ea1 c.94.1.1 (A:16-287) Hypothetical protein DR0370 {Deinococcus radiodurans [TaxId: 1299]}  ali model 3D-neighbors follow..  28  2..YRAGWIHFTNVAPILDSLEL---PPGVTAITGVPTQMNAALLSGEVDIANVSAVEFIRHADTLAALPDFSVAVLGPVYSVNLFHTCPLPE--LRRVALTSQSAMSVALLEVLLRQKGLSPVLERAEGTAESLLAAGYDGVLRIGDDALRETSLPHTGRGITVTDLAQEWFDLTGHPFTFAVWAYRKD-----NPPPAALLQAMREARRRGIGHLAEVSQRHAEKLGLPERVVQHYLWNFRYHLEAPDRLGLREFADLAVPGHAELT......... 271
3 -81.000d2czla1 c.94.1.1 (A:3-272) Hypothetical protein TTHA1568 {Thermus thermophilus [TaxId: 274]}  ali model 3D-neighbors follow..  20  1.ALRLGFSPCPNDTFIFYALVHGRVESPLEPVLEDVETLNRWALEGRLPLTKLSYAAYAQVRDRYVALR--SGGALGRGVGPLVVARGPLQALEGLRVAVPGRHTTAYFLLSLYAQGFVPVEVRYDRILPMVAQ--GEVEAGLIIHESRFTYP----RYGLVQVVDLGAWWEERTGLPLPLGAILARRDL---GEGLIRALDEAVRRSVAYALAHPEEALDYMRAHAEVIWAHVHTYVNAFSLDVGEEGERAVARLFAEAEARGLAAPSPRPLFV.. 270
4 -15.300d2ozza1 c.94.1.1 (A:1-228) Hypothetical protein YhfZ {Shigella flexneri [TaxId: 623]}  ali model 3D-neighbors follow..  12  12INNVVCAMPLPYTR-LYEGLASGGIPFYYAHMRGADIRV-ECLLNGVYDMAVVSRLAAESYLSQNNLCIALELGPHTYVGEHQLI--RKGESGNVKRVGLDSRSADQKIMTDVFFGDSDVERVDLSYHESLQRIVKGDVDAV--IWNVVAENELTMLGLEATPLTDDPRFLQATEAV------------LTRVDDYPMQQLLRAVVDKHALLAHQQRVVSGEQEPS................................................... 227
5 -10.600d1ixca2 c.94.1.1 (A:90-294) LysR-type regulatory protein CbnR {Ralstonia eutropha [TaxId: 106590]}  ali model 3D-neighbors follow..  13  3.ELSVAYFGTPRSLPLLRAFLTSTPTATVSLTHMTKDEQVEGLLAGTIHVGFSRFFPRHPGIEIVNIAQEDLYLAVHRSQSGKFGKTCKLADLRAVELTLFPRGGRPSFVIGLFKHAGIEPRIARVVEDATAALALTMAGAASSIVPASVAAIRWPD-VGTRVKVPISCIFRKEKQPPILARFVEHVRRSAKD.................................................................................... 205
6 -9.620d1ryoa_ c.94.1.2 (A:) Transferrin {Human (Homo sapiens) [TaxId: 9606]}  ali model 3D-neighbors follow..  2.TVRWCAVS--SFRDHMKSVIPSDGPSVACVKKASYLDCIRAIAANEADAVTLDAGLVYDAYLAPNNLKPVVAEFYGSKYAVAVVKKDSMNQLRGKKSCHTGLGRSAGWNIPIGLLYCDLPEPRKPLEKAVANLKDGAGDVAFVKHSTIFENLANKADRDQYELL---DEYKDCHLAQVPSHTVVARSMGGKE-----DLIWELLNQAQEHFGKDKSKEFQLFSSPHG-SAHGFLKVPPRMDAKLGYEYVTAIRNL..................... 323
7 -9.320d1i6aa_ c.94.1.1 (A:) Hydrogen peroxide-inducible genes LysR-type activator OxyR, regulatory domain {Escherichia coli [TaxId: 562]}  ali model 3D-neighbors follow..  14  6.PLHIGLIPTVGPY-IIPMLHQTFPKLEMYLHEAQTHQLLAQLDSGKLDAVILALVKESEAFIEVPLFDEPMLLAIYEDHPWANREAVPMADLAGEKLMLEDGHCLRDQAMGFCFEAGADEDTHFRATSLETLRNMVAAGSGITLLPALAVPPERKRDGVVYLPATIGLVYRPGSPLRSRYEQLA............................................................................................ 200
8 -9.160d2fyia1 c.94.1.1 (A:88-307) LysR-type regulatory protein Cbl {Escherichia coli [TaxId: 562]}  ali model 3D-neighbors follow..  11  7.VLTIATTHTQARYEVIKAFRELFPEVRLELIQGTPQEIATLLQNGEADIGIASERLSNDPQLVAFPWFRWHHSLLVPHDHPLTQISPTLESIAKWPLITYRQGITGRSRIDDAFARK-GLLADIVLSAQDSDVIKTYVALGLGIG................................................................................................................................... 154
9 -8.870d1al3a_ c.94.1.1 (A:) Cofactor-binding fragment of LysR-type protein CysB {Klebsiella aerogenes [TaxId: 28451]}  ali model 3D-neighbors follow..  7.SLYVATTHTQARYGVIKGFIERYPRVSLHMHQGSPTQIAEAVSKGNADFAIATEALHLYDDLVMLPCYHWNRSIVVTPEHPLATKGSSIEELAQYPLVTYTFGFTGRSELDTAFNRA-GLTPRIVFTATDADVIKTYVRLGLGVG................................................................................................................................... 154
10 -8.460d1xt8a1 c.94.1.1 (A:10-257) Putative amino-acid transporter CjaA {Campylobacter jejuni [TaxId: 197]}  ali model 3D-neighbors follow..  10  52.........................ENKVQFVLVEAANRVEFLKSNKVDI-ILANFTQTPQRAEQVDFCSPYMKVALGVAVPKDSNITSVEDLKDKTLLLNKGTTADAYFTQNY-----NIKTLKYDQNTETFAALMDKRGDALSHDNTLLFAWVKDHPDFKMGIK-----ELGNKDVIAPAVKKGDKELKEFIDNLIIKLGQE......................................................................... 220

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.

Liu T, Rojas A, Ye Y, Godzik A. Homology modeling provides insights into the binding mode of the PAAD/DAPIN/pyrin domain, a fourth member of the CARD/DD/DED domain family. Protein Sci. 2003 Sep;12(9):1872-81.