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Query: [K] COG0195 Transcription elongation factor, from COG1018

Results of FFAS03 search in COG1018
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 MNSEFMDALTTLEKEKGISKEVIIEAIEAALISGYKRNFNQAQNVRVDVNRENGSIRVFARKEVVEEVFDARLEISLDEAKGINPNYEVDDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAERGIIYADFIDREEDIMTGIVQRQDNRFIYVDLGKVEALLPLSEQMPNESYRHNDRIKAYITKVEKTTKGPQIMISRTHPGLLKRLFELEVPEIYDGTVELKSVAREAGDRSKISVHAENPEVDPVGACVGPKGSRVQTIVNELKGEKIDIVRWSEDPVEYVANALSPSKVVKVNVNEEEKTTQVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESEAQELGLLEDEAASHETLALDQETADQPEATVETSKNHEEELast
1 -126.000[K] COG0195 Transcription elongation factor  ali  100  1MNSEFMDALTTLEKEKGISKEVIIEAIEAALISGYKRNFNQAQNVRVDVNRENGSIRVFARKEVVEEVFDARLEISLDEAKGINPNYEVDDVVEIEVTPKDFGRIAAQTAKQVVTQRVREAERGIIYADFIDREEDIMTGIVQRQDNRFIYVDLGKVEALLPLSEQMPNESYRHNDRIKAYITKVEKTTKGPQIMISRTHPGLLKRLFELEVPEIYDGTVELKSVAREAGDRSKISVHAENPEVDPVGACVGPKGSRVQTIVNELKGEKIDIVRWSEDPVEYVANALSPSKVVKVNVNEEEKTTQVIVPDYQLSLAIGKRGQNARLAAKLTGWKIDIKSESEAQELGLLEDEAASHETLALDQETADQPEATVETSKNHEEE 382
2 -8.930[R] KOG2113 Predicted RNA binding protein, contains KH domain  ali follow..  15  1........................................................................................................................................................................................MKEEQIAYKLPGAWYYEEDTASCSPVSDPEDIAQFLNYRTSIGVQNVTESVEVPTSE-----VAEIVGRQGCKIKAL-RAKTNTYIKTPVRGEDPIFVVTGRLEDVNEAKREIDCGQITSYVRVPLRVVGLVVGPKGATIKRIQQDTHTYIITPSREREP...................................... 179
3 -8.640[T] KOG2279 Kinase anchor protein AKAP149, contains KH and Tudor RNA-binding domains  ali follow..  13  67..............................................................................................................................................................................................................CLKIVVDN------------------------------EHVPLIMGRGGSNIKLI-EEKTLAKIRLRDKDSGHKFCDISG-ARALLIKEIERAPVVKVELQVPQRLASKINGRGGELLQEIRSSSLAKLNIDLNGRNGKAKITIIGNQKQVNIARKMLDDQIEED........... 206
4 -8.150[J] COG0539 Ribosomal protein S1  ali follow..  16  135...........................................................................LVDVRPIRDTAHLENKELEFKVIKLDQKRNNVVVSRRAVIESESSVERDELLETL--QEGTEVKGIVKNLTDYGAFVDLGGVDGLLHITDM-PSEIVNVGDEILVKVLKFDRDRTRVSLGLKQLGEDPWVAIAKVEIEEGVEGLVHVSEMDWTNKNIHPSKVVNVGDEVEVMVLDIDEERRRISLGLKQCKANPWQSFAEAQAKGDKVTGKIKSITDFGIFIG--EGGIDGLVHLSDISLAVDAERERISLGIK..................................................... 434
5 -8.110[AR] KOG2191 RNA-binding protein NOVA1/PASILLA and related KH domain proteins  ali follow..  16  53.........................................................................................................................................................................................................................................KVLIPS-----YAAGSIIGKGGQTIVQL-QKETGATIKLSK-TTERVCLIQGTVEALNAVHGFIAERANQVKIIVPNSTAGLIIGKGGATVKAVMEQSGAWVQLSQKPDGINLQER................................. 222
6 -7.700[J] COG1098 Predicted RNA binding protein (contains ribosomal protein S1 domain)  ali follow..  22  4....................................................................................................................................EVGSKLQGKITGITNFGAFVELPGSTGLVHISEKDINDHLKVGDQVEVKVINVEKDGK---IGLSIKK...................................................................................................................................................................................... 75
7 -7.480[S] COG2996 Uncharacterized protein conserved in bacteria  ali follow..  11  36.........GEHTVGDVVTGFVYVDKDDHRRLTTLEQKATNEHYGWGTVTAVRKDLGAF----VDTGLPGKDVVVSLDDPLEKDQWPKVGDQLYVKLIIDRKERIWGHLAWHEDFWNLAGPGYDN-------MQNQDLRAIVYRNKESGTFVYLNNMLGFIHPNER--FSVPRVGQELQVRVIGFRKEDRSLNLSAKPRAYE-KMAFNDKSNPDEIKATFGISKGQKALGGLMKAKKIKQSPE........................................................................................................................................... 278
8 -7.300[AR] KOG2193 IGF-II mRNA-binding protein IMP, contains RRM and KH domains  ali follow..  16  199.........................................................................................................................................................................................................................................RLLVPT-----QYVGAIIGKEGATIRNITKQTQAEKAISVHSTPEGCSSACKMILEHKEAKDTKTADEVPLKTLAHNNFVGRLIGKEGRNLKKVEQDTETKITISSLQDLTLYNPERTITVKGAIENCCRAEQEIMKKVREA....... 350
9 -7.060[K] KOG3298 DNA-directed RNA polymerase subunit E`  ali follow..  8  80.................................................................................................................................WRPFRGEVVDAIVTTVNKMGFFANIGPLNVFVSSHLVPPDMKFEKGSNVRLKIVGTRTDATEIFAIATMKEDYL................................................................................................................................................................................... 169
10 -7.040[L] COG0592 DNA polymerase sliding clamp subunit (PCNA homolog)  ali follow..  14  7.RNELGNLIKKIQS---VPQNTPIPVLTHVLIETYNDELVTATDLTVSTRYEKGAISIPSKRQLVKELTEANLEISSSAGEMAQITSGSSCFRLLSMEKEDFPMLPDIQNALRFSEQLKTMLQRTSFAVSREESRYVLTGVLLAIANGVATIVGTDGKRLAKIDAEIPIKAVEEIIKMCSDEGEAAIFLDQDKIAVECDNTLLITKLLSGEFPDLITLLKQVALFTNESSHSVKFSFLPGELTLTANCTKVGEGKVSMAV---NYSGELLEI-------PFFFLDILKHSKDELVSLGISDSYNPGIITDSASGLFV................................................................. 357
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.

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.

Rychlewski L, Jaroszewski L, Li W, Godzik A. Comparison of sequence profiles. Strategies for structural predictions using sequence information. Protein Sci. 2000 Feb;9(2):232-41.