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Query: 2oug_A mol:protein length:162 Transcriptional activator rfaH, from PDB1018

Results of FFAS03 search in PDB1018
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 MQSWYLLYCKRGQLQRAQEHLERQAVNCLAPMITLEKIVRGKRTAVSEPLFPNYLFVEFDPEVIHTTTINATRGVSHFVRFGASPAIVPSAVIHQLSVYKPKDIVDPATPYPGDKVIITEGAFEGFQAIFTEPDGEARSMLLLNLINKEIKHSVKNTEFRKLLast
1 -87.9002oug_A mol:protein length:162 Transcriptional activator rfaH  ali model  100  1MQSWYLLYCKRGQLQRAQEHLERQAVNCLAPMITLEKIVRGKRTAVSEPLFPNYLFVEFDPEVIHTTTINATRGVSHFVRFGASPAIVPSAVIHQLSVYKPKDIVDPATPYPGDKVIITEGAFEGFQAIFTEPDGEARSMLLLNLINKEIKHSVKNTEFRKL 162
2 -72.0002lq8_A mol:protein length:177 Transcription antitermination protein nusG  ali model follow..  21  4KKKWYIVLTMSGYEEKVKENIEKKVEATGIKVGRIVIPIRGGQRRKSEKLFPGYVFVEMIMNDEAYNFVRSVPYVMGFVSSGGQPVPVKDREMRPILRLAGLEEYEEKKFKVGDMVKIISGPFEDFAGVIKEIDERQELKVNVTIFGRETPVVLHVSEVEKI 176
3 -69.1005ms0_F mol:protein length:183 Transcription termination/antitermination protein NusG  ali model follow..  16  9.KRWYVVQAFSGFEGRVATSLRDLFGEVMVPTEEVVEIRGGQRRKSERKFFPGYVLVQMVMNDASWHLVRSVPRVMGFIGTSDRPAPISDKEVDAIMNRLQQVPRPKTLFEPGEMVRVNDGPFADFNGVVEEVDEKSRLKVSVSIFGRATPVELDFSQVEKA 183
4 -65.6001m1g_A mol:protein length:248 Transcription antitermination protein nusG  ali model follow..  14  80.KKGVTTFRIENGEVKVVESVEGDTCVNAPPIITCKENKTEAKIVLDNKIFPGYILIKAHMNDKLLMAIEKTPHVFRPVMVGGKPVPLKEEEVQNILNQIKRGVPSKVEFEKGDQVRVIEGPFMNFTGTVEEVHEKRKLTVMISIFGRMTPVELDFDQVEKI 248
5 -52.2002xhc_A mol:protein length:352 TRANSCRIPTION ANTITERMINATION PROTEIN NUSG  ali model follow..  19  169.QDVYYIPLDVFDRDRIKKGKEVKQGEMLAEARKSTRKEIRIYKTKRRKLFPGYVFVEMIMNDEAYNFVRSVPYVMGFVSSGGQPVPVKDREMRPILRLAGLEVKVELGFKVGDMVKIISGPFEDFAGVIKEIDERQELKVNVTIFGRETPVVLHVSEVEKI 352
6 -49.1001nz8_A mol:protein length:119 TRANSCRIPTION ANTITERMINATION PROTEIN NUSG  ali model follow..  24  2.IEWYAVHTLVGQEEKAKANLEKKIFQVLIPTEEVVEREGGKKEVVRKKLFPGYLFIQMDLGDEAWEVVRGTPGITGFVGAGMRPVPLSPDEVRHILEVSGLL........................................................... 118
7 -33.5004zn1_A mol:protein length:147 Transcription elongation factor Spt5  ali model follow..  17  2...IFAVRTMVGQEKNIAGLMASRAEKEQLDVYSI----------LASESLKGYVLVEAETKGDVEELIKGMPRVRGIV-----PGTIAIEEIEPLLTPKKI----IENIEKGDVVEIIAGPFKGERAKVIRVDHKEEVTLELENAAVPIPITLPVEGVKIV 142
8 -31.3003qqc_D mol:protein length:163 Transcription antitermination protein nusG  ali model follow..  18  3.GKIFAVRVTHGQEETTAKLIYSKVRTYNLPIYAI----------LAPSRVKGYIFVEAPNKGVVDEAIRGIRHARGVL-----PGEVPFKEIEHFLEEKPA----VSGLEPGDLVEVIAGPFKGQKAKVVKIDSKDEVVVQFIDAIVPIPVTIKGDYVRLI 145
9 -30.1002lcl_A mol:protein length:66 Transcriptional activator rfaH  ali model follow..  100  5....................................................................................................PKDIVDPATPYPGDKVIITEGAFEGFQAIFTEPDGEARSMLLLNLINKEIKHSVKNTEFRKL 66
10 -25.2002kvq_G mol:protein length:63 Transcription antitermination protein nusG  ali model follow..  16  2.....................................................................................................AMGRPKTLFEPGEMVRVNDGPFADFNGVVEEVDEKSRLKVSVSIFGRATPVELDFSQVEKA 63
11 -24.9002mi6_A mol:protein length:62 Transcription termination/antitermination protein NusG  ali model follow..  16  1.....................................................................................................GRPVVEVDYEVGESVTVMDGPFATLPATISEVNEQQKLKVLVSIFGRETPVELTFGQVSKI 62
12 -24.4006duq_M mol:protein length:60 Transcription termination/antitermination protein NusG  ali model follow..  17  3.........................................................................................................AKTLFEPGEMVRVNDGPFADFNGVVEEVDEKSRLKVSVSIFGRATPVELDFSQVEKA 60
13 -23.3001nz9_A mol:protein length:58 TRANSCRIPTION ANTITERMINATION PROTEIN NUSG  ali model follow..  17  1.........................................................................................................AQVAFREGDQVRVVSGPFADFTGTVTEINERGKVKVMVTIFGRETPVELDFSQVVK. 57
14 -16.4002e6z_A mol:protein length:59 Transcription elongation factor SPT5  ali model follow..  20  1......................................................................................................GSSGSSGFQPGDNVEVCEGELINLQGKILSVDGN-KITIMPKHEDLKDMLEFPAQELRK. 58
15 -14.4005xon_W mol:protein length:612 Protein that forms a complex with Spt4p  ali model follow..  13  24....WGVKVRLGKEKDVVRQILKKKLA-----REGTKNPLEIYSAFQRDSFKGHVYIEARKAEAINDALKGNVNVFS----NNSKFLVGIVEYKDLLRPVKSS---DVKLTRGSYVRVKNGKFKGDLAQVDEVLENGL-EARLKLVPR.............. 154
16 -14.0005oik_Z mol:protein length:1087 Transcription elongation factor SPT5  ali model follow..  16  180...W-TVKCKIGEERATAISLMRKFIA-----YQFTDTPLQIKSVVAPEHVKGYIYVEAYKQTHVKQAIE---GVGNLRLGYWNQQMVPIKEMTDVLKVVKE----VANLKPKSWVRLKRGIYKDDIAQVDYVEPSQN-TISLKMIPR.............. 310
17 -13.6005xog_W mol:protein length:83 Spt4/5 complex component  ali model follow..  19  21................................................................................................................NKTVKIRQGGYKGKIGIVKEANGDR---FRVELHNPNKTIPIPCSFLLIE 67
18 -13.4002e70_A mol:protein length:71 Transcription elongation factor SPT5  ali model follow..  17  21................................................................................................................GQTVRISQGPYKGYIGVVKDATEST---ARVELHSTCQTISVDRQRLTTV 67
19 -11.9004ytl_A mol:protein length:99 Transcription elongation factor SPT5  ali model follow..  20  1.............................................................................................................FQPGDRIEVLNGEQRGSKGIVTRTTKD---IATIKLNGFTTPLEFPISTLRKI 50
20 -10.9005ohq_A mol:protein length:111 Transcription elongation factor SPT5  ali model follow..  18  8......................................................IQVKV-RDTYLDTQVVGQTGVIRSVTGGMCSVYLKDS---EKVVSISSEHLEPITPTKNNKVKVILGEDREATGVLLSIDGED---GIVRMDLDEQLKILNLRFLGKL 108
21 -10.3002do3_A mol:protein length:69 Transcription elongation factor SPT5  ali model follow..  26  18.............................................................................................................FKMGDHVKVIAGRFEGDTGLIVRVEEN-FVILFSDLTMHELKV.......... 59
22 -10.0002ckk_A mol:protein length:127 KIN17  ali model follow..  19......................................................IIVKIITKKLGEKYHKKKAIVKEVIDKYTAVVKMIDS---GDKLKLDQTHLETVIPAPGKRILVLNGGYRGNEGTLESINEKTTIVIETGPLKGRRVEGIQYEDISKL 126
23 -9.7602exu_A mol:protein length:200 Transcription initiation protein SPT4/SPT5  ali model follow..  10  105....WGVRCRPGKEKELIRKLLKKKFNL---DRAMGKKKLKILSIFQRDNYTGRIYIEAPKQSVIEKFCNGVPDI-----YISQKLLIPVQELPLLLKPNLE............................................................ 194
24 -9.7403h7h_B mol:protein length:106 Transcription elongation factor SPT5  ali model follow..  15  9....WTVKCKIGEERATAISLMRKFIA-----YQFTDTPLQIKSVVAPEHVKGYIYVEAYKQTHVKQAIE---GVGNLRLGYWNQQMVPIKEMTDVLKVVKE............................................................ 98
25 -9.3303lpe_A mol:protein length:92 Putative transcription antitermination protein nusG  ali model follow..  15  13....FAVRTMVGQEKNIAGLMASRAEKEQLDVYSI----------LASESLKGYVLVEAETKGDVEELIKGMPRV-----RGIVPGTIAIEEIEPLLT................................................................ 91
26 -9.1603ewg_A mol:protein length:91 Putative transcription antitermination protein nusG  ali model follow..  15  3....FAVRTMVGQEKNIAGLMASRAEKEQLDVYSI----------LASESLKGYVLVEAETKGDVEELIKGMPRV-----RGIVPGTIAIEEIEPLLTPKLE............................................................ 85

FFAS is supported by the NIH grant R01-GM087218-01
1 4 7 6 2 8   jobs submitted since Jan 1, 2011
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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.

Friedberg I, Godzik A. Fragnostic: walking through protein structure space. Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W249-51.