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Query: 2lcl_A mol:protein length:66 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.
    .   10    .   20    .   30    .   40    .   50    .   60    .
# Score Template Links and tools%idFirst GAMGPKDIVDPATPYPGDKVIITEGAFEGFQAIFTEPDGEARSMLLLNLINKEIKHSVKNTEFRKLLast
1 -38.7002lcl_A mol:protein length:66 Transcriptional activator rfaH  ali model  100  1GAMGPKDIVDPATPYPGDKVIITEGAFEGFQAIFTEPDGEARSMLLLNLINKEIKHSVKNTEFRKL 66
2 -30.1002oug_A mol:protein length:162 Transcriptional activator rfaH  ali model follow..  100  101....PKDIVDPATPYPGDKVIITEGAFEGFQAIFTEPDGEARSMLLLNLINKEIKHSVKNTEFRKL 162
3 -29.5006duq_M mol:protein length:60 Transcription termination/antitermination protein NusG  ali model follow..  17  2........NAKTLFEPGEMVRVNDGPFADFNGVVEEVDEKSRLKVSVSIFGRATPVELDFSQVEKA 60
4 -29.1002kvq_G mol:protein length:63 Transcription antitermination protein nusG  ali model follow..  16  2.....AMGRPKTLFEPGEMVRVNDGPFADFNGVVEEVDEKSRLKVSVSIFGRATPVELDFSQVEKA 63
5 -29.1002mi6_A mol:protein length:62 Transcription termination/antitermination protein NusG  ali model follow..  16  2......RPVVEVDYEVGESVTVMDGPFATLPATISEVNEQQKLKVLVSIFGRETPVELTFGQVSKI 62
6 -28.6002lq8_A mol:protein length:177 Transcription antitermination protein nusG  ali model follow..  21  110YEEKKKPVKVELGFKVGDMVKIISGPFEDFAGVIKEIDERQELKVNVTIFGRETPVVLHVSEVEKI 176
7 -28.3001nz9_A mol:protein length:58 TRANSCRIPTION ANTITERMINATION PROTEIN NUSG  ali model follow..  17  1.........AQVAFREGDQVRVVSGPFADFTGTVTEINERGKVKVMVTIFGRETPVELDFSQVVK. 57
8 -27.9005ms0_F mol:protein length:183 Transcription termination/antitermination protein NusG  ali model follow..  15  117LQQVGDKPRPKTLFEPGEMVRVNDGPFADFNGVVEEVDEKSRLKVSVSIFGRATPVELDFSQVEKA 183
9 -26.8001m1g_A mol:protein length:248 Transcription antitermination protein nusG  ali model follow..  13  182NQIKRGVKPSKVEFEKGDQVRVIEGPFMNFTGTVEEVHEKRKLTVMISIFGRMTPVELDFDQVEKI 248
10 -25.6002xhc_A mol:protein length:352 TRANSCRIPTION ANTITERMINATION PROTEIN NUSG  ali model follow..  21  287.EEKKKPVKVELGFKVGDMVKIISGPFEDFAGVIKEIDERQELKVNVTIFGRETPVVLHVSEVEKI 352
11 -18.3004zn1_A mol:protein length:147 Transcription elongation factor Spt5  ali model follow..  19  81.....TPKKIIENIEKGDVVEIIAGPFKGERAKVIRVDHKEEVTLELENAAVPIPITLPVEGVKIV 142
12 -18.0002e6z_A mol:protein length:59 Transcription elongation factor SPT5  ali model follow..  23  8.............FQPGDNVEVCEGELINLQGKILSVDGN-KITIMPKHEDLKDMLEFPAQELRK. 58
13 -16.0003qqc_D mol:protein length:163 Transcription antitermination protein nusG  ali model follow..  19  84.....EEKPAVSGLEPGDLVEVIAGPFKGQKAKVVKIDSKDEVVVQFIDAIVPIPVTIKGDYVRLI 145
14 -13.7002e70_A mol:protein length:71 Transcription elongation factor SPT5  ali model follow..  17  21................GQTVRISQGPYKGYIGVVKDATEST---ARVELHSTCQTISVDRQRLTTV 67
15 -13.2005xog_W mol:protein length:83 Spt4/5 complex component  ali model follow..  19  21................NKTVKIRQGGYKGKIGIVKEANGDR---FRVELHNPNKTIPIPCSFLLIE 67
16 -12.9004ytl_A mol:protein length:99 Transcription elongation factor SPT5  ali model follow..  20  1.............FQPGDRIEVLNGEQRGSKGIVTRTTKD---IATIKLNGFTTPLEFPISTLRKI 50
17 -11.6005xon_W mol:protein length:612 Protein that forms a complex with Spt4p  ali model follow..  18  549...............LNKTVKIRQGGYKGKIGIVKEANGDR---FRVELHNPNKTIPIPCSFLLIE 596
18 -10.3002do3_A mol:protein length:69 Transcription elongation factor SPT5  ali model follow..  26  18.............FKMGDHVKVIAGRFEGDTGLIVRVEEN-FVILFSDLTMHELKV.......... 59
19 -9.6005ohq_A mol:protein length:111 Transcription elongation factor SPT5  ali model follow..  18  60..............TKNNKVKVILGEDREATGVLLSIDGED---GIVRMDLDEQLKILNLRFLGKL 108
20 -9.1401s72_T mol:protein length:120 50S ribosomal protein L24P  ali model follow..  16  43.............VNAGDTVEVLRGDFAGEEGEVINVDLDKAVIHVEDV-GEEVPRPLDTSNVRVT 100

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.