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Query: [C] COG4656 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC, from COG0516

Results of FFAS03 search in COG0516
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 MFKLFTARQHDKIWDFDGGIHPPEMKLQSSTVPMRIAPLPDQLIIPLQQHLGPEGELRVRAGEQVLKGQPLTVGRGRTVPVHAPTSGMITAIAPHTTAHPSGLAELCVHITPDGEDRWREQQPWADYRQRDKMALLDRIHQAGIAGLGGAGFPTASKLQGGLNGIITLIINAAECEPYITADDRLMQEHADEVITGIHILRHLLQPQQVLIGIEDNKPEAIAALQRALRGQDDIHLRVVPTKYPSGGAKQLTKILTGKEVPFGKHSSSIGVLMQNVGTVVAIKRAVIDDEPLIERVVTLTGDALSSPGNFWARIGTPVLYLLKLAGFKPQNPPMVIMGGPLMGFTLPSLDVPIVKISNCILAPAETEMGLSEPEQSCIRCGLCVDACPAGLLPQQLYWFSRGEEHEKARNHNLFDCIECGACAYVCPSNIPLVQYYRQEKAEIRALDQESARAAEAKARFEAKQARLAREKLARELRHKQAAVKLTDADQQTVDAAVSRLTRQSDGSESVINIPAGQMPDNSAVIAAREARKAQARARQAEKQQARSTEETTDVVDPRQAAVAAAIARVKAKKAVQAQHVTTDVAEAGSEAMAEDPRKAAVAAAIARVKAKKAAQAINPDLast
1 -162.000[C] COG4656 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC  ali  100  1MFKLFTARQHDKIWDFDGGIHPPEMKLQSSTVPMRIAPLPDQLIIPLQQHLGPEGELRVRAGEQVLKGQPLTVGRGRTVPVHAPTSGMITAIAPHTTAHPSGLAELCVHITPDGEDRWREQQPWADYRQRDKMALLDRIHQAGIAGLGGAGFPTASKLQGGLNGIITLIINAAECEPYITADDRLMQEHADEVITGIHILRHLLQPQQVLIGIEDNKPEAIAALQRALRGQDDIHLRVVPTKYPSGGAKQLTKILTGKEVPFGKHSSSIGVLMQNVGTVVAIKRAVIDDEPLIERVVTLTGDALSSPGNFWARIGTPVLYLLKLAGFKPQNPPMVIMGGPLMGFTLPSLDVPIVKISNCILAPAETEMGLSEPEQSCIRCGLCVDACPAGLLPQQLYWFSRGEEHEKARNHNLFDCIECGACAYVCPSNIPLVQYYRQEKAEIRALDQESARAAEAKARFEAKQARLAREKLARELRHKQAAVKLTDADQQTVDAAVSRLTRQSDGSESVINIPAGQMPDNSAVIAAREARKAQARARQAEKQQARSTEETTDVVDPRQAAVAAAIARVKAKKAVQAQHVTTDVAEAGSEAMAEDPRKAAVAAAIARVKAKKAAQAINPD 620
2 -22.600[C] COG1726 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrA  ali follow..  16  1....MITIKKGLNLPISG----------SPEQVIRDGNAITEVALLGEEYVGMRPSMKVREGDVVKKGQVLEDKKNPGVVFTAPASGTVTAIH-----RGAKRVLQSVVIKIEGNEQ-FEKYTTEQLNQLTSEQVRQNLQASGLWTA------PFSKVPAVDATPVSIFVNAMDTNPLCADPQVIVQQSAQAFEAGLTVLSRLHEGKVYLCKAANAS--------IPSPSIANLDVKEFAGPHPAGLSGTHIHFID---------PVSATKFVWYINDVIAVGKLFTTGELDVSRVVSLAGPQVKNPRLVRTVLGANLSQLTA--NEVKDGENRVISGSVLSGAKAAGPVDYLGRYALQVSVLEEGRTALNGGERAMVPIGAYERVMPLDIIPTLLLRDLAAGDTDSAQALGCLELDE-ALCTFVCPGKNEYGPLLRQALDKIEKE.............................................................................................................................................................................. 445
3 -21.600[C] COG1894 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit  ali follow..  19  50...............................................................................................................................KGMAPTDVVNVVKDAGLKGRGGAGFSTGLK-KDDSMNIRYLLCNADEMEPGTYKDRLLMEQLPHLLVEGMLISAFALKAYRGYIFLRGEYIEAAVHLRRAIAEATELIVHTGAGRYICGEETALINSLEGRR-SKPPFPASSGVCVNNVETLCNVPAIIEHGVEWYQKLMGFSGR-VKNPGLWELPFGITAREILEDYAGGMRDGLKFQPGGAGAGSRLGTALAMAVDHEIGMVSLVRNLEEFFSRE-SCGWCTPCRDGLPVKILRALERGEGQPGDIETLEQLCRFLGPGKTFCAHAPGAVEPLQSAIKYFRDEFEAGIAVKAYESGMTSGNTRAIAGIQPNLLKAR................................................................................................................................................. 460
4 -21.500[C] KOG2658 NADH:ubiquinone oxidoreductase, NDUFV1/51kDa subunit  ali follow..  18  86.........................................................................................................................HRTKDLVLKGTDWIVNEMKKSGLRGRGGAGFPSGLK-KVSDGRPSYLVVNADESEPGTCKDREIMRHDPHKLLEGCLIAGVGMRASAAYIYIRGEYVNERLNLEKARREAYEVYIHFGAGAYICGEETALLESLEGKQ-LKPPFPANAGLTVTNVETVAVSPTILRRGPEWFSKLFCISGH-VNKPCTVEEEMSIPLKELIERHCG--DNLLAIIPGGSSVQSGLGTAAVIVMDKSTDVVDAIARLSYFYKHE-SCGQCTPCREGTGWLWMIMERMKVGNAKLEEIDMLQEVTKQIEGHTCALGDAAAWPVQGLIRHFRPELERRIRERA......................................................................................................................................................................... 477
5 -19.200[C] COG1152 CO dehydrogenase/acetyl-CoA synthase alpha subunit  ali follow..  13  86...........................................LLGKKGACGIDAATQQART-ACLIGTAAHAGHARHL-VDHLIERLGEDYKIDLGSNVDIEAPITRTVMGKRPATLGDLREVMDYAEEQMSHLLSA------CHTGQEGDSKDFESKA----FHAGLMDDLTRE--LAQIVALDLPKGDEDAPLVELGFGTIDTEKPVVLCENEMEDQVEVCGICCAAI-DVTRYNEAAKVVGPLSKQLRFIRSG--------VADVIVVDEQCVRTDVLEEALKNRSAV---IATTDKMCLGLPDMTDEDPDKIVNDLINGN-----IEGALILDPEKVGEVAVKTAMKLAPIRKSLKKLPDID-EIIELASECTDCGWCQRVCPNSLPVMDAVKKAADGDLSKLEEMAIEECYTCGRCEQECERNIPIVSMVTKAGERRVKDEKYRIRAGRGPAQDVEIRRVGAP....................................................................................................................................................... 502
6 -17.900[C] COG1150 Heterodisulfide reductase, subunit C  ali follow..  14  39......................................................................................................................................................................................................................................................................................................................................................................................QACYQCGTCTGSCPSSYRTRLIMRKLQLGLVDEVKSDELWMCTTCYTCYERCPRGVKIVDAVKAARNLAAKKGYMAKAHRMVAMFVIKTGHAVPINDEIREVRKNIGLDEVPPTTHRYEEA............................................................................................................................. 164
7 -16.600[C] COG1144 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, delta subunit  ali follow..  28  53........................................................................................................................................................................................................................................................................................................................................................................................CVKCYICWKFCPEPAIYIK----------DGFVAIDYDYCKGCGICANECPTK--AITMVREEK.................................................................................................................................................................................... 105
8 -15.800[C] COG1146 Ferredoxin  ali follow..  12  42....................................................................................................................................................................................................................................................................................................................................................................................DYDKCVTCGICFVTCGRRVFDFD------KKEGKVIVARPYNCMVACQTCMNLCPTGAISFPDASYIKKLVAQNKIVKKAFEIIKPLLAEDHLSPKETETK................................................................................................................................................... 136
9 -14.100[C] COG1143 Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I)  ali follow..  22  56..................................................................................................................................................................................................................................................................................................................................................................................PDGEERCVACNLCAVACPVGCISLQKAETEDGRWYPEFFRINFSRCIFCGLCEEACPTTIQLTPDFEMGEFKRQDLVYEKHDLLISGPGKNPDYNYYRVAGMAIAGKPKGAAQNEAEP.................................................................................................................................... 174
10 -13.600[C] KOG3256 NADH:ubiquinone oxidoreductase, NDUFS8/23 kDa subunit  ali follow..  20  64............................................................................................................................................................................................................................................................................................................................................STMFFGELLRGFAVTTINYPFEKGPLSPRFRGEHALRRPSGEERCIACKLCEAICPAQAITIEAEERADGSRRTTRYDIDMTKCIYCGFCQEACPVDIVEGPNFEFSTETHEELLYNKEKLLCNGDKWESEIAS.......................................................................................................................................................... 208
11 -11.500[C] COG2878 Predicted NADH:ubiquinone oxidoreductase, subunit RnfB  ali follow..  17  16...............................................................................................................................................................................................................................................................................LAFGAILGYASRRFAVEDDPVVEKIDEIL------PQSQCGQCGYPCRPYAEAISCNGEKINRCAPGGEAVMLKIAELNVEPQPLDGEAQELTPARMVAVIDENNCIGCTKCIQACPVDAI---------VGATRAMHTVMSDLCTGCNLCVDPCPTHISLQPV----AETPDSWKWDLNTIPVRIIPVEHH............................................................................................................................................................. 191
12 -11.200[C] COG0348 Polyferredoxin  ali follow..  14  102............................................................................................................................................................................................................................................................RVFCAWVCPLNIVT-----ASAWLRRKLEIRQSAKLPRSLRYAILVMILLGSALSGLLLWEWLNPVAALGRALIYGFGATVWLVLAVFLFDLFIVE--CPIGAAYGVIGAKGLFRIKVEHRQQ-CDNCMDCYNVCPEPQVLRD----PLHAKKSESPLVLSKDCISCGRCIDVCPEKV--------FIFTTRFNHSVNHSGE...................................................................................................................................................................... 291
13 -11.100[DR] KOG4739 Uncharacterized protein involved in synaptonemal complex formation  ali follow..  4.........................................................................................................................................................................................................................................................................................................................................................................................IQCNHCGIK--------------------NQTKLYLTACVFCQNCT-LCKKPLKVDEINKNLRPDLMELFKDPRQLASDLVNELKQVVAFQAKQREIYVKCKNAEAKKDTERFAEARSKHVEKTQEIEKRKKAFLEDNVKLKNAKEEKNQLMARLKELREQPSQNLSVNKRRSNTRTEPPFSKISRTGPPSVMRKASHEFSLNLRDQSTSKILTSTPLSNIDYSRRDHRNRLFGAGLEHPSP. 236
14 -10.800[C] COG1139 Uncharacterized conserved protein containing a ferredoxin-like domain  ali follow..  14  74............................................................................................................................................SEKVIQNGGHVY---AATAEDATNYIKNVAKQKNAKKIVKSKSMVTEEGMNHVLEAEGIKVVETDLGEYILQVAEDKPSHIVVPAIHKDRHQIRKVLAEKLGYTGSDTPEEMTLFIRETIRNDFLEADIGVSGCNFAVAETGSVCLVTNESLPKTHIAVMG--MERLAPTFKEVDVLITLLARSAVGARLTGYNTWLTGPRLAGETDGPEVIVDNGRSKMLGSEFREV------LRCIRCGACLNTCPASVISPILGGYEEFKDLPSACSL-------CTACNQVCPVKIPLANLLLKHRRHIAESGMNPLAERLS.................................................................................................................................................................... 402
15 -10.300[C] COG1142 Fe-S-cluster-containing hydrogenase components 2  ali follow..  12  1.....................................................................................................................................................................................................................................................................................................................................................MNRFVIADSTLCIGCHTCEAACSETHRQHGLQSMPCHHCAPCAVVCPVNAITRV----------DGAVQLNESLCVSCKLCGIACPFGAIEFSGSRPLDIPANANTPKAPPAPPAPARISTLLDWVPGIRAIAV-------------------------KCDLCSFDEQGPACVRMCPTKALHLVDNTDIARVSKRKRELTFNTDFGDLTL.................................................................... 193
16 -10.200[C] COG1145 Ferredoxin  ali follow..  3................................................................................................................................HSHHLEIYEKLREK-------NKAPIGLPKTVSGVEKELLLFDEEEAKIAVHMPFIKSLEYVEKILNEMAKKGTVWKGEKVIVGFAEPGPGKDPRQEKLARLWSQYRKEGFLDEIGDREHPIMRALPERDTISEKSEILPY----EDAVKLVKERDYIAVGYCPCRVMARLVGEGCRHSIENCIHMGSVGKYMVEHGLGRADEAIEILRQSNREGLVHLTERSKAVHEAKHPNTIAHSSYLATVDTSRCIACGICMLRCPMKAI--------KAKINREPASVDAEKCLGCGVCVPTCPMEIELVERDELLELPDGMTYVQELLADKGRDP................................................................................................................................................................. 364
17 -10.000[C] COG1141 Ferredoxin  ali follow..  15  50....................................................................................................................................................................................................................................................................................................................................................................................DEITCIGCKHCAHVARNTFYIEPDYGRSRVIRQDGDAEEVIQEAIDCDCIHWVDYTELKNLEEDFQVIPVVGYPVDHAVATTEKRRRKQKSKNKKSR....................................................................................................................................................... 151
18 -9.030[K] KOG2857 Predicted MYND Zn-finger protein/hormone receptor interactor  ali follow..  9...........................................................................................................................................................................................................................................................................................................................................................................................CEICEKKCP-----------------------------SCLVCSLGC---------FKIHKVCNLINNAETPCAKPSDPSSTEEKPVVQCEPWFESCSGFVAASPAKEVPVKRPEEANDVVEKTQQKASASSSEIREALKDEPLQKLIYSIDSSSNPLQELDEAMGIEAFREFTDKILSNISKSNDEQGISTMDIGKELPAMEEEEIVASDGDQQTDHKDSSEVG................ 202
19 -9.020[C] COG0437 Fe-S-cluster-containing hydrogenase components 1  ali follow..  16  64.....................................................................................................................................................................................................................................................................................................................................................................................SISCNHCDACTKVCPSG---------AMHKREDGFVVVDEDVCIGCRYCHMACPYGAPQYN--HMTKCDGCYSRVAEGKQPICVESCPLRALEFGPIEELRQKHGTLAAVAPLPRAHFTKPNIVIKPNANSRPTGDTTGYLANPE...................................................................................................... 203

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.

Li W, Jaroszewski L, Godzik A. Tolerating some redundancy significantly speeds up clustering of large protein databases. Bioinformatics. 2002 Jan;18(1):77-82.