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Query: 5xog_W mol:protein length:83 Spt4/5 complex component, 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    .   70    .   80
# Score Template Links and tools%idFirst GPGPSIPVANQRMTGRDPTLNKTVKIRQGGYKGKIGIVKEANGDRFRVELHNPNKTIPIPCSFLLIESTHGWVPYEDFVASDRLast
1 -46.8005xog_W mol:protein length:83 Spt4/5 complex component  ali model  100  1GPGPSIPVANQRMTGRDPTLNKTVKIRQGGYKGKIGIVKEANGDRFRVELHNPNKTIPIPCSFLLIESTHGWVPYEDFVASDR 83
2 -37.9002e70_A mol:protein length:71 Transcription elongation factor SPT5  ali model follow..  34  1GSSGSSGMSRGRGRRDNELIGQTVRISQGPYKGYIGVVKDATESTARVELHSTCQTISVDRQRLTTVGSR............. 70
3 -35.2005xon_W mol:protein length:612 Protein that forms a complex with Spt4p  ali model follow..  98  532..PPSIPVANQRMTGRDPTLNKTVKIRQGGYKGKIGIVKEANGDRFRVELHNPNKTIPIPCSFLLIESTHGWVPYEDFVASDR 612
4 -22.2005oik_Z mol:protein length:1087 Transcription elongation factor SPT5  ali model follow..  29  687PGGGSGGMSRGRGRRDNELIGQTVRISQGPYKGYIGVVKDATESTARVELHSTCQTISVDRQRLTTVGSRRPGGMTSTYGRT. 768
5 -15.9004ytl_A mol:protein length:99 Transcription elongation factor SPT5  ali model follow..  21  3...................PGDRIEVLNGEQRGSKGIVTRTTKDIATIKLNGFTTPLEFPISTLR.................. 48
6 -15.7002lq8_A mol:protein length:177 Transcription antitermination protein nusG  ali model follow..  20  125...................VGDMVKIISGPFEDFAGVIKEIDPERVNVTIFGRETPVVLHVSEVEKIE............... 177
7 -15.6005ohq_A mol:protein length:111 Transcription elongation factor SPT5  ali model follow..  18  62....................NNKVKVILGEDREATGVLLSIDGEDGIVRMDLDEQLKILNLRFLGKLLEA............. 111
8 -15.1002do3_A mol:protein length:69 Transcription elongation factor SPT5  ali model follow..  14  20...................MGDHVKVIAGRFEGDTGLIVRVEENFVILFSDLTMHELKVLPRDLQLCSE.............. 69
9 -14.8005ms0_F mol:protein length:183 Transcription termination/antitermination protein NusG  ali model follow..  14  132...................PGEMVRVNDGPFADFNGVVEEVDYEKVSVSIFGRATPVELDFSQVEKA................ 183
10 -14.4001m1g_A mol:protein length:248 Transcription antitermination protein nusG  ali model follow..  10  197...................KGDQVRVIEGPFMNFTGTVEEVHPEKVMISIFGRMTPVELDFDQVEKI................ 248
11 -14.2004zn1_A mol:protein length:147 Transcription elongation factor Spt5  ali model follow..  27  91...................KGDVVEIIAGPFKGERAKVIRVDKHKEEVTLELENAAITLPVEGVKIVSKH............. 145
12 -14.2003qqc_D mol:protein length:163 Transcription antitermination protein nusG  ali model follow..  14  94...................PGDLVEVIAGPFKGQKAKVVKIDESKDEVVVQFIDAIVTIKGDYVRLISKLQKEE......... 152
13 -14.0002xhc_A mol:protein length:352 TRANSCRIPTION ANTITERMINATION PROTEIN NUSG  ali model follow..  20  301...................VGDMVKIISGPFEDFAGVIKEIDPERVNVTIFGRETPVVLHVSEVEKI................ 352
14 -13.6002oug_A mol:protein length:162 Transcriptional activator rfaH  ali model follow..  19  113....................GDKVIITEGAFEGFQAIFTEPDGEALLLNLINKEIKHSVKNTEFRKL................ 162
15 -13.6004ytk_A mol:protein length:130 Transcription elongation factor SPT5  ali model follow..  25  4....................GSYVRIKRGIYKGDLAMVDQISENNLEVMLKIVPRL........................... 39
16 -13.3002kvq_G mol:protein length:63 Transcription antitermination protein nusG  ali model follow..  14  12...................PGEMVRVNDGPFADFNGVVEEVDYEKVSVSIFGRATPVELDFSQVEKA................ 63
17 -13.2002lcl_A mol:protein length:66 Transcriptional activator rfaH  ali model follow..  19  17....................GDKVIITEGAFEGFQAIFTEPDGEALLLNLINKEIKHSVKNTEFRKL................ 66
18 -12.7006duq_M mol:protein length:60 Transcription termination/antitermination protein NusG  ali model follow..  14  9...................PGEMVRVNDGPFADFNGVVEEVDYEKVSVSIFGRATPVELDFSQVEKA................ 60
19 -12.6002mi6_A mol:protein length:62 Transcription termination/antitermination protein NusG  ali model follow..  10  11...................VGESVTVMDGPFATLPATISEVNAEQVLVSIFGRETPVELTFGQVSKI................ 62
20 -12.5002e6z_A mol:protein length:59 Transcription elongation factor SPT5  ali model follow..  13  11....................GDNVEVCEGELINLQGKILSVDGNKITIMPKHEKDMLEFPAQELR.................. 57
21 -11.9001nz9_A mol:protein length:58 TRANSCRIPTION ANTITERMINATION PROTEIN NUSG  ali model follow..  19  7...................EGDQVRVVSGPFADFTGTVTEINPERVMVTIFGRETPVELDFSQVV.................. 56
22 -11.4001s72_T mol:protein length:120 50S ribosomal protein L24P  ali model follow..  18  46....................GDTVEVLRGDFAGEEGEVINVDLDKAVIHVDGEEVPRPLDTSNVRVTD............... 101
23 -10.9003j6b_Q mol:protein length:297 54S ribosomal protein L40, mitochondrial  ali model follow..  21  66....................GDRVVVMSGASKGNIAVIKSFDKRTNSFILDE............................... 97
24 -10.6002ckk_A mol:protein length:127 KIN17  ali model follow..  18  74....................GKRILVLNGGYRGNEGTLESINEKTFSATIVKGRRVEGIQYEDISKLA............... 127
25 -10.4004ce4_Y mol:protein length:216 MRPL24  ali model follow..  21  59....................GDKVEILEGKDAGKQGKVVQVIRQRNWVVVEGLNSEAPLLHNQVKLVDPTDRKPTD....... 132
26 -10.1003j7y_V mol:protein length:216 uL24  ali model follow..  25  59....................GDTVEILEGKDAGKQGKVVQVIRQRNWVVVGGLNSEAPLLHRQVKLVDPMDRKPTE....... 132
27 -10.0005xy3_Y mol:protein length:138 Ribosomal protein L24, putative  ali model follow..  19  53....................DDEVMIFSGRMQNRTGKVTAVKLSEMRIYVD................................ 83
28 -9.9405mmi_V mol:protein length:192 plastid ribosomal protein uL24c  ali model follow..  28  73....................GDTVKVISGGEKGKIGEISKIHKHNSTVIIKDLNIEAAIHSSNVMLYSKEQEVASR....... 147
29 -9.8301nkw_S mol:protein length:115 50S ribosomal protein L24  ali model follow..  29  19....................GDTVIVLSGKHKGQTGKVLLALPRDQKVVVE................................ 49
30 -9.8205mlc_W mol:protein length:191 50S ribosomal protein L24, chloroplastic  ali model follow..  26  72....................GDTVKVISGGEKGKIGEISKIHKHNSTVIIKDLNIEAAIHSSNVMLILKEQEVADR....... 146
31 -9.8003jcs_W mol:protein length:143 ribosomal protein L24  ali model follow..  19  50....................DDEVIVKRGTFKGREGKVTACYRLKWVILID................................ 80
32 -9.7305t2a_X mol:protein length:143 uL24  ali model follow..  19  50....................DDEVIVKRGAFKGREGKVTACYRLKWVIHID................................ 80
33 -9.5302ww9_L mol:protein length:127 60S RIBOSOMAL PROTEIN L26-A  ali model follow..  22  53....................DDEVLVVRGSKKGQEGKISSVYRLKFAVQVD................................ 83
34 -9.4305v7q_U mol:protein length:105 50S ribosomal protein L24  ali model follow..  38  6....................GDTVLVISGKDKGAKGKVLQAYPDRNRVLVE................................ 36
35 -9.3105o60_V mol:protein length:105 50S ribosomal protein L24  ali model follow..  35  6....................GDTVLVISGKDKGAKGKVLVAYPDRNKVLVE................................ 36
36 -9.3104v4i_S mol:protein length:110 50S ribosomal protein L24  ali model follow..  35  10....................GDTVLVASGKYKGRVGKVKEVLPKKYAVIVE................................ 40
37 -9.2505xxb_X mol:protein length:141 Ribosomal protein uL24  ali model follow..  12  52....................DDEVMVVRGHHHDREGKVTKVYRKKWVIHIE................................ 82
38 -9.2004wce_R mol:protein length:105 50S ribosomal protein L24  ali model follow..  32  6....................GDNVKVIAGKDKGKEGKVIATLPKKDRVVVE................................ 36
39 -9.0905t5h_Z mol:protein length:113 60S ribosomal protein L26  ali model follow..  25  44....................DDEVRVKRGAYKGREGKVTACYRLRWVIHID................................ 74
40 -9.0803j3v_U mol:protein length:103 50S ribosomal protein L24  ali model follow..  29  6....................GDKVMVISGKDKGKQGTILAAFPKKDRVLVE................................ 36
41 -9.0103j79_Z mol:protein length:126 60S ribosomal protein uL24  ali model follow..  25  52....................DDEVLICRGHNHGREGKVVKINRKRYKIYVE................................ 82
FFAS is supported by the NIH grant R01-GM087218-01
1 4 6 8 5 0   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.

Plewczynski D, Tkacz A, Godzik A., Rychlewski L. A support vector machine approach to the identification of phosphorylation sites. Cell Mol Biol Lett. 2005;10(1):73-89.