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Query: 5ms0_F mol:protein length:183 Transcription termination/antitermination protein NusG, 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 GAMSEAPKKRWYVVQAFSGFEGRVATSLREHIKLHNMEDLFGEVMVPTEEVVEIRGGQRRKSERKFFPGYVLVQMVMNDASWHLVRSVPRVMGFIGGTSDRPAPISDKEVDAIMNRLQQVGDKPRPKTLFEPGEMVRVNDGPFADFNGVVEEVDYEKSRLKVSVSIFGRATPVELDFSQVEKALast
1 -91.5005ms0_F mol:protein length:183 Transcription termination/antitermination protein NusG  ali model  100  1GAMSEAPKKRWYVVQAFSGFEGRVATSLREHIKLHNMEDLFGEVMVPTEEVVEIRGGQRRKSERKFFPGYVLVQMVMNDASWHLVRSVPRVMGFIGGTSDRPAPISDKEVDAIMNRLQQVGDKPRPKTLFEPGEMVRVNDGPFADFNGVVEEVDYEKSRLKVSVSIFGRATPVELDFSQVEKA 183
2 -74.0002lq8_A mol:protein length:177 Transcription antitermination protein nusG  ali model follow..  39  1....GAMKKKWYIVLTMSGYEEKVKENIEKKVEATGIKNL-------VGRIVIPIRGGQRRKSEKLFPGYVFVEMIMNDEAYNFVRSVPYVMGFVS-SGGQPVPVKDREMRPILRLAGLEEKPVKVELGFKVGDMVKIISGPFEDFAGVIKEIDPERQELKVNVTIFGRETPVVLHVSEVEKI 176
3 -69.1002oug_A mol:protein length:162 Transcriptional activator rfaH  ali model follow..  16  2........QSWYLLYCKRGQLQRAQEHLE---------RQAVNCLAPMITLEKIVRGKRTAVSEPLFPNYLFVEFDPEVIHTTTINATRGVSHFVR-FGASPAIVPSAVIHQLSVYKPKD---IVDPATPYPGDKVIITEGAFEGFQAIFTEPD-GEARSMLLLNLINKEIKHSVKNTEFRKL 162
4 -68.8001m1g_A mol:protein length:248 Transcription antitermination protein nusG  ali model follow..  38  3EQQVQELEKKWYALQVEPGKENEAKENLLKVLELEGLKDLVDEVIVPAEEKVENKTEAKIVLDNKIFPGYILIKAHMNDKLLMAIEKTPHVFRPVM-VGGKPVPLKEEEVQNILNQIKRG--VKPSKVEFEKGDQVRVIEGPFMNFTGTVEEVHPEKRKLTVMISIFGRMTPVELDFDQVEKI 248
5 -55.9002xhc_A mol:protein length:352 TRANSCRIPTION ANTITERMINATION PROTEIN NUSG  ali model follow..  39  1......MKKKWYIVLTMSGYEEKVKENIEKKVEATGIKNLVGRIVIPEEVVLDATSPSERLILSKLFPGYVFVEMIMNDEAYNFVRSVPYVMGFVSS-GGQPVPVKDREMRPILRLAGEKKKPVKVELGFKVGDMVKIISGPFEDFAGVIKEIDPERQELKVNVTIFGRETPVVLHVSEVEKI 352
6 -55.0001nz8_A mol:protein length:119 TRANSCRIPTION ANTITERMINATION PROTEIN NUSG  ali model follow..  37  1.......SIEWYAVHTLVGQEEKAKANLEKRIKAFGLQDKIFQVLIPTEEVVELRGGKKEVVRKKLFPGYLFIQMDLGDEAWEVVRGTPGITGFVG-AGMRPVPLSPDEVRHILEVSGLLG.............................................................. 119
7 -41.1004zn1_A mol:protein length:147 Transcription elongation factor Spt5  ali model follow..  21  2..........IFAVRTMVGQEKNIAGLMASRAEKEQLD--------------------YSILASESLKGYVLVEAETKGDVEELIKGMPRVRGIV------PGTIAIEEIEPLLT-------PKKIIENIEKGDVVEIIAGPFKGERAKVIRVDKHKEEVTLELENAAVPIPITLPVEGVKIV 142
8 -39.0003qqc_D mol:protein length:163 Transcription antitermination protein nusG  ali model follow..  19  2.......AGKIFAVRVTHGQEETTAKLIYSKVRTYNLP--------------------YAILAPSRVKGYIFVEAPNKGVVDEAIRGIRHARGVLPG------EVPFKEIEHFLE-------EKPAVSGLEPGDLVEVIAGPFKGQKAKVVKIDESKDEVVVQFIDAIVPIPVTIKGDYVRLI 145
9 -33.6002kvq_G mol:protein length:63 Transcription antitermination protein nusG  ali model follow..  95  1........................................................................................................................GAMGRPKTLFEPGEMVRVNDGPFADFNGVVEEVDYEKSRLKVSVSIFGRATPVELDFSQVEKA 63
10 -32.4006duq_M mol:protein length:60 Transcription termination/antitermination protein NusG  ali model follow..  95  1...........................................................................................................................SNAKTLFEPGEMVRVNDGPFADFNGVVEEVDYEKSRLKVSVSIFGRATPVELDFSQVEKA 60
11 -32.0002mi6_A mol:protein length:62 Transcription termination/antitermination protein NusG  ali model follow..  52  2..........................................................................................................................RPVVEVDYEVGESVTVMDGPFATLPATISEVNAEQQKLKVLVSIFGRETPVELTFGQVSKI 62
12 -31.4001nz9_A mol:protein length:58 TRANSCRIPTION ANTITERMINATION PROTEIN NUSG  ali model follow..  58  1.............................................................................................................................AQVAFREGDQVRVVSGPFADFTGTVTEINPERGKVKVMVTIFGRETPVELDFSQVVKA 58
13 -27.9002lcl_A mol:protein length:66 Transcriptional activator rfaH  ali model follow..  15  1....................................................................................................................GAMGPKDIVDPATPYPGDKVIITEGAFEGFQAIFTEPD-GEARSMLLLNLINKEIKHSVKNTEFRKL 66
14 -17.8002e6z_A mol:protein length:59 Transcription elongation factor SPT5  ali model follow..  19  3............................................................................................................................SGSSGFQPGDNVEVCEGELINLQGKILSVDGN--KITIMPKHEDLKDMLEFPAQELRK. 58
15 -17.1005xon_W mol:protein length:612 Protein that forms a complex with Spt4p  ali model follow..  15  15..IPTVDDPGIWGVKVRLGKEKDVVRQILKKKLAREGTKNPLEI--------------YSAFQRDSFKGHVYIEARKAEAINDALKGNVNVF-----SNNSKFLVGIVEYKDLLRPVKSS------DVKLTRGSYVRVKNGKFKGDLAQVDEVLENGLEARLKL................... 151
16 -16.0005oik_Z mol:protein length:1087 Transcription elongation factor SPT5  ali model follow..  14  171..LPGVKDPNLWTVKCKIGEERATAISLMRKFIAYQFTDTPLQI--------------KSVVAPEHVKGYIYVEAYKQTHVKQAIEGVGNLR----LGYWNQQMVPIKEMTDVLKVVKE-------VANLKPKSWVRLKRGIYKDDIAQVDYVEPSQNTISLKM................... 307
17 -14.8005xog_W mol:protein length:83 Spt4/5 complex component  ali model follow..  14  20...................................................................................................................................LNKTVKIRQGGYKGKIGIVKEANGDR----FRVELHNPNKTIPIPCSFLLIE 67
18 -14.0002e70_A mol:protein length:71 Transcription elongation factor SPT5  ali model follow..  20  20...................................................................................................................................IGQTVRISQGPYKGYIGVVKDATEST----ARVELHSTCQTISVDRQRLTTV 67
19 -13.5004ytl_A mol:protein length:99 Transcription elongation factor SPT5  ali model follow..  26  1.................................................................................................................................FQPGDRIEVLNGEQRGSKGIVTRTTKDI----ATIKLNGFTTPLEFPISTLRKI 50
20 -13.0003lpe_A mol:protein length:92 Putative transcription antitermination protein nusG  ali model follow..  17  2SRRASVGAHMIFAVRTMVGQEKNIAGLMASRAEKEQLD--------------------YSILASESLKGYVLVEAETKGDVEELIKGMPRV------RGIVPGTIAIEEIEPLLT.................................................................... 91
21 -12.4003h7h_B mol:protein length:106 Transcription elongation factor SPT5  ali model follow..  13  1...GSHMDPNLWTVKCKIGEERATAISLMRKFIAYQFTDTPLQI--------------KSVVAPEHVKGYIYVEAYKQTHVKQAIEGVGNLRLGY----WNQQMVPIKEMTDVLK.................................................................... 94
22 -11.6001s72_T mol:protein length:120 50S ribosomal protein L24P  ali model follow..  35  43.................................................................................................................................VNAGDTVEVLRGDFAGEEGEVINVDLDKAVIHVLEKTDGEEVPRPLDTSNV... 97
23 -11.3002do3_A mol:protein length:69 Transcription elongation factor SPT5  ali model follow..  18  18.................................................................................................................................FKMGDHVKVIAGRFEGDTGLIVRVEEN----FVILFSDLTMHELKVLPRDLQLC 67
24 -11.2002exu_A mol:protein length:200 Transcription initiation protein SPT4/SPT5  ali model follow..  94KPRDGSGSATIWGVRCRPGKEKELIRKLLKKKFNLDRAMGKKKLKI------------LSIFQRDNYTGRIYIEAPKQSVIEKFCNGVPDI------YISQKLLIPVQELPLLLKPNLE................................................................ 194
25 -11.1003ewg_A mol:protein length:91 Putative transcription antitermination protein nusG  ali model follow..  19  3...........FAVRTMVGQEKNIAGLMASRAEKEQLD--------------------YSILASESLKGYVLVEAETKGDVEELIKGMPRV------RGIVPGTIAIEEIEPLLTPKLE................................................................ 85
26 -10.5002ckk_A mol:protein length:127 KIN17  ali model follow..  10  19......................................................................IIVKIITKKLGEKYHKKKAIVKEVIDKDSGDKLKLDQTHLETVI----------------APGKRILVLNGGYRGNEGTLESINEKTFSATIVIE-LKGRRVEGIQYEDISKL 126
27 -10.2005v7q_U mol:protein length:105 50S ribosomal protein L24  ali model follow..  23  3.................................................................................................................................VHKGDTVLVISGKDKGAKGKVLQAYPDRNRVLVEVNRIKKHTA........... 46
28 -10.1004ytk_A mol:protein length:130 Transcription elongation factor SPT5  ali model follow..  17  1.................................................................................................................................LEEGSYVRIKRGIYKGDLAMVDQISENNLEVMLKI................... 35
29 -10.1005o60_V mol:protein length:105 50S ribosomal protein L24  ali model follow..  20  3.................................................................................................................................VHKGDTVLVISGKDKGAKGKVLVAYPDRNKVLVEVNRIKKHTA........... 46
30 -9.8301nkw_S mol:protein length:115 50S ribosomal protein L24  ali model follow..  24  16.................................................................................................................................FKKGDTVIVLSGKHKGQTGKVLLALPRDQKVVV..................... 48
31 -9.7505xy3_Y mol:protein length:138 Ribosomal protein L24, putative  ali model follow..  22  47..............................................................................................................................RLPIRRDDEVMIFSGRMQNRTGKVTAVKLSEMRIYVD-KINGQAVSFPVHPSNV... 104
32 -9.7504v4i_S mol:protein length:110 50S ribosomal protein L24  ali model follow..  31  2............................................................................................................................RVKMHVKKGDTVLVASGKYKGRVGKVKEVLPKKYAVIV..................... 39
33 -9.7204wce_R mol:protein length:105 50S ribosomal protein L24  ali model follow..  27  3.................................................................................................................................IKKGDNVKVIAGKDKGKEGKVIATLPKKDRVVV..................... 35
34 -9.7103j3v_U mol:protein length:103 50S ribosomal protein L24  ali model follow..  24  3.................................................................................................................................VKKGDKVMVISGKDKGKQGTILAAFPKKDRVLV..................... 35
35 -9.6705ohq_A mol:protein length:111 Transcription elongation factor SPT5  ali model follow..  16  20......................................................................................QVVGQTGVIRSVTGGMCSVYLKDSEKVVSISSEHLEPITP----TKNNKVKVILGEDREATGVLLSIDGED----GIVRMDLDEQLKILNLRFLGKL 108
36 -9.6503j6b_Q mol:protein length:297 54S ribosomal protein L40, mitochondrial  ali model follow..  24  63.................................................................................................................................FIPGDRVVVMSGASKGNIAVIKSFDKRTNSFIL..................... 95
37 -9.3703jcs_W mol:protein length:143 ribosomal protein L24  ali model follow..  20  44..............................................................................................................................AMPVRKDDEVIVKRGTFKGREGKVTACYRLKWVILID-KANGSTVAVGIHPSNV... 101
38 -9.3602ww9_L mol:protein length:127 60S RIBOSOMAL PROTEIN L26-A  ali model follow..  20  47..............................................................................................................................ALPIRRDDEVLVVRGSKKGQEGKISSVYRLKFAVQVD-KVNGASVPINLHPSKL... 104
39 -9.3505t2a_X mol:protein length:143 uL24  ali model follow..  20  44..............................................................................................................................AMPVRKDDEVIVKRGAFKGREGKVTACYRLKWVIHID-KANGSTVAVGIHPSNV... 101
40 -9.2903j7z_U mol:protein length:104 50S ribosomal protein L24  ali model follow..  16  1.............................................................................................................................MAAKIRRDDEVIVLTGKDKGKRGKVKNVLSSGKVIVE..................... 37
41 -9.2405t5h_Z mol:protein length:113 60S ribosomal protein L26  ali model follow..  20  38..............................................................................................................................AMPVRKDDEVRVKRGAYKGREGKVTACYRLRWVIHID-KANGTTVPVGVHPSNV... 95

FFAS is supported by the NIH grant R01-GM087218-01
1 4 7 6 1 7   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.

Jaroszewski L, Rychlewski L, Zhang B, Godzik A. Fold prediction by a hierarchy of sequence, threading, and modeling methods. Protein Sci. 1998 Jun;7(6):1431-40.