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Query: 6eu0_V mol:protein length:594 Transcription factor TFIIIB component B``, 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 MSSIVNKSGTRFAPKVRQRRAATGGTPTPKPRTPQLFIPESKEIEEDNSDNDKGVDENETAIVEKPSLVGERSLEGFTLTGTNGHDNEIGDEGPIDASTQNPKADVIEDNVTLKPAPLQTHRDQKVPRSSRLASLSKDNESRPSFKPSFLDSSSNSNGTARRLSTISNKLPKKIRLGSITENDMNLKTFKRHRVLGKPSSAKKPAGAHRISIVSKISPPTAMTDSLDRNEFSSETSTSREADENENYVISKVKDIPKKVRDGESAKYFIDEENFTMAELCKPNFPIGQISENFEKSKMAKKAKLEKRRHLRELRMRARQEFKPLHSLTKEEQEEEEEKRKEERDKLLNADIPESDRKAHTAIQLKLNPDGTMAIDEETMVVDRHKNASIENEYKEKVDENPFANLYNYGSYGRGSYTDPWTVEEMIKFYKALSMWGTDFNLISQLYPYRSRKQVKAKFVNEEKKRPILIELALRSKLPPNFDEYCCEIKKNIGTVADFNEKLIELQNEHKHHMKEIEEAKNTAKEEDQTAQRLNDANLNKKGSGGIMTNDLKVYRKTEVVLGTIDDLKRKKLKERNNDDNEDNEGSEEEPEIDQLast
1 -122.0006eu0_V mol:protein length:594 Transcription factor TFIIIB component B``  ali model  100  1MSSIVNKSGTRFAPKVRQRRAATGGTPTPKPRTPQLFIPESKEIEEDNSDNDKGVDENETAIVEKPSLVGERSLEGFTLTGTNGHDNEIGDEGPIDASTQNPKADVIEDNVTLKPAPLQTHRDQKVPRSSRLASLSKDNESRPSFKPSFLDSSSNSNGTARRLSTISNKLPKKIRLGSITENDMNLKTFKRHRVLGKPSSAKKPAGAHRISIVSKISPPTAMTDSLDRNEFSSETSTSREADENENYVISKVKDIPKKVRDGESAKYFIDEENFTMAELCKPNFPIGQISENFEKSKMAKKAKLEKRRHLRELRMRARQEFKPLHSLTKEEQEEEEEKRKEERDKLLNADIPESDRKAHTAIQLKLNPDGTMAIDEETMVVDRHKNASIENEYKEKVDENPFANLYNYGSYGRGSYTDPWTVEEMIKFYKALSMWGTDFNLISQLYPYRSRKQVKAKFVNEEKKRPILIELALRSKLPPNFDEYCCEIKKNIGTVADFNEKLIELQNEHKHHMKEIEEAKNTAKEEDQTAQRLNDANLNKKGSGGIMTNDLKVYRKTEVVLGTIDDLKRKKLKERNNDDNEDNEGSEEEPEIDQ 594
2 -55.8005n9g_C mol:protein length:175 Transcription factor TFIIIB component B`` homolog  ali model follow..  25  2........................................................................................................................................................................................................................................................................................................................................................ASSGLEVLFQGPGPLLVPRVKVAEDGSIILDEESLTVEVLRTKG-PCVVEENDPIFERGSTTTYSSFRKNYYSKPWSNKETDMFFLAISMVGTDFSMIGQLFPHRARIEIKNKFKREEKTNGWRIDKAFQEKRPFDFDFFAHLLQKVLAEEEKRKQKSVKNHSLKEKKS................................................................................. 169
3 -17.7002iw5_B mol:protein length:235 REST COREPRESSOR 1  ali model follow..  24  123............................................................................................................................................................................................................................................................................................................................................................................................................................IQKCNARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKNFFVNYRRR--------------FNIDEVLQEWEAEHGKEETNGPSNQKPVKSPDNSIKMPEEEDEAPVLDVRYASAS............................................................. 229
4 -15.4005z10_A mol:protein length:2547 Piezo-type mechanosensitive ion channel component 1  ali model follow..  6 1311ATALQASRGFALYNAANLKSINFHRQIEEKSLAQLKRQMKRIRAKQEKYRQSQASRGQLQSKDPQDPSQEPGPDSPGGSSPPRRQWWRPWLDHATVIHSGDYFLFESDSEEEEEALPEDPRPAAQSAFQMAYQAWVTNAQTVLRQRRERARQERAEQLASGGDLNPDVEPVDVPEDEMAGRSHMMQRVLSTMQFLWVLGQATVDGLTRWLRAFTKHHRTMSDVLCAERYLLTQELLRVGEVRRGVLDQLYVGEDEATLSGPVETRDGPSTASSGLGAEEPLSSMTDDTSSPLSTGYNTRSGSEEIVTDAGDLQAGTSLHGSQELLANARTRMRTASELLLDRRLHIPELEEAERFEAQQGRTLRLLRAGYQCVAAHSELL-----------------------NHMVTASAAS------WAMRPSKRFWMTARILGLDLVQLMALFFHRSQLLCYGLWDHEEDRYPKDHCRSSVKDREAKEEPEAKLESQSETGTGHPKEPVLAGTPRDHIQGKGSIRSKDVIQDPPEDLKPRHTRHISIRFRRRKETPGPKGTAVMETEHEEGEGKETTERKRPRHTQEKSKFRERMKAAGRR 1942
5 -14.8005h6q_B mol:protein length:140 REST corepressor 1  ali model follow..  28  74..........................................................................................................................................................................................................................................................................................................................................................................................................................EVIQKCNARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKNFFVNYRRR----IDEVLQEWEA.................................................................................................................... 139
6 -13.7002xaf_B mol:protein length:482 REST COREPRESSOR 1  ali model follow..  24  376............................................................................................................................................................................................................................................................................................................................................................................................................................IQKCNARWTTEEQLLAVQAIRKYGRDFQAISDVIGNKSVVQVKNFFVNYRRR--------------FNIDEVLQEWEAEHGKEETNGPSNQKPVKSPDNSIKMPEEEDEAPVLDVRYASAS............................................................. 482
7 -13.3005lj5_O mol:protein length:590 Pre-mRNA-splicing factor CEF1  ali model follow..  14  9...............................................................................................................................................................................................................................................................................................................................................................................................................................KGGVWTNVEDQILKAAVQKYGTQWSKVASLLQKKTARQSELRWKEEDAQ--RTIADMMARPAQVCVERYNRLLESEDSGGAALSTGVTDLKAGDINPNAETQMARPDNGDLEDEEKEMAEARARLLNTQGKKATRKIRERMLEESKRIAELQKRRELKQAGINVAIKKPKKKYGTDID. 212
8 -13.3004czz_B mol:protein length:553 REST COREPRESSOR 3  ali model follow..  17  145.................................................................................................................................................................................................................................................................................................................................................................................................................................DEWTVEDKVLFEQAFSFHGKSFHRIQQMLPDKTIASLVKYYYSWKKT-----------------RSRTSLMDRQARKLANRHNQGDSDDDVEETHPMDGNDSDYDPKKEAKKEGNTEQ........................................................... 245
9 -12.4005lj3_O mol:protein length:590 CEF1  ali model follow..  11  9...............................................................................................................................................................................................................................................................................................................................................................................................................................KGGVWTNVEDQILKAAVQKYGTQWSKVASLLQKKTARQSELRWKEEDAQ--RTIADMMARPAQVCVERYNRLLESEDSGGAALSTGVTDLKVGDINPNAETQMARPDNGDLEDEEKEMLAEARARLLNTQGKKATRKIRERMLEESKRIAELQKRRELKQA.................. 194
10 -11.9005icn_A mol:protein length:195 Metastasis-associated protein MTA1  ali model follow..  19  123.............................................................................................................................................................................................................................................................................................................................................................................................................................RDEMEEWSASEANLFEEALEKYGKDFTDIQQFLPWKSLTSI--EYKTTDRYVQQKRLKAAEAESKLK.................................................................................................................. 193
11 -11.8002ltp_A mol:protein length:89 Nuclear receptor corepressor 2  ali model follow..  26  2........................................................................................................................................................................................................................................................................................................................................................................................................................SSGRENLYFQGWTEEEMGTAKKGLLEHGRNWSAIARMVGSKTVSQCKNFYFNYKKR.................................................................................................................................. 57
12 -11.1002cu7_A mol:protein length:72 KIAA1915 protein  ali model follow..  36  1........................................................................................................................................................................................................................................................................................................................................................................................................................GSSGSSGYSVKWTIEEKELFEQGLAKFGRRWTKISKLIGSRTVLQVKS-FKNKVKCG................................................................................................................................. 61
13 -10.9005mqf_L mol:protein length:802 Cell division cycle 5-like protein  ali model follow..  26  11...................................................................................................................................................................................................................................................................................................................................................................................................................................WRNTEDEILKAAVMKYGKQWSRIASLLHRKSAKQCKARWSREE-------EEKLLH....................................................................................................................... 73
14 -10.7002eqr_A mol:protein length:61 Nuclear receptor corepressor 1  ali model follow..  20  2......................................................................................................................................................................................................................................................................................................................................................................................................................SSGSSGDRQFMNVWTDHEKEIFKDKFIQHPKNFGLIASYLERKSVPDCVLYYYLTKKN.................................................................................................................................. 59
15 -10.6001xc5_A mol:protein length:71 Nuclear receptor corepressor 2  ali model follow..  14  12........................................................................................................................................................................................................................................................................................................................................................................................................................KVYKDRQVMNMWSEQEKETFREKFMQHPKNFGLIASFLERKTVAECVLYYYLTKKN.................................................................................................................................. 67
16 -10.3002roh_A mol:protein length:122 Telomere binding protein-1  ali model follow..  18  27............................................................................................................................................................................................................................................................................................................................................................................................................................QRRIRRPFTVAEVELLVEAVEHLGTRWRDVKF-VHHRTYVDLKDKWKAPQQRRGAPVPQELLDR...................................................................................................................... 103
17 -10.3004a69_C mol:protein length:94 NUCLEAR RECEPTOR COREPRESSOR 2  ali model follow..  13  35........................................................................................................................................................................................................................................................................................................................................................................................................................KVYKDRQVMNMWSEQEKETFREKFMQHPKNFGLIASFLERKTVAECVLYYYLTKKNENYK.............................................................................................................................. 94
18 -10.2002yus_A mol:protein length:79 SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily C member 1  ali model follow..  25  18................................................................................................................................................................................................................................................................................................................................................................................................................................GREWTEQETLLLLEALEMYKDDWNKVSEHVGSRTQDECILHFLR...................................................................................................................................... 61
19 -9.9904eef_G mol:protein length:74 F-HB80.4, DESIGNED HEMAGGLUTININ BINDING PROTEIN  ali model follow..  25  10......................................................................................................................................................................................................................................................................................................................................................................................................................GSHMASTRGSGRPWKFSENIAFEIALSFTNKDWKKVAQYVKGRTPEEVKKHYELE..................................................................................................................................... 68
20 -9.9603osf_A mol:protein length:126 MYB21  ali model follow..  24  61...............................................................................................................................................................................................................................................................................................................................................................................................................................SHTPWTAEEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRWVTISNK.................................................................................................................................. 109
21 -9.9102juh_A mol:protein length:121 Telomere binding protein TBP1  ali model follow..  15  3..................................................................................................................................................................................................................................................................................................................................................................................................................NQKSKRSELSQRRIRRPFSVAEVEALVEAVEHLGTRWRDVKMNADHRTYVDLKDKWKT...................................................................................................................................... 65
22 -9.6101ug2_A mol:protein length:95 2610100B20Rik gene product  ali model follow..  22  23......................................................................................................................................................................................................................................................................................................................................................................................................................NSKVSSTGEKVVLWTREADRVILTMCQEQGAQFSVISQQLGNKTPVEVSHRFRE...................................................................................................................................... 79
23 -9.5502cjj_A mol:protein length:93 RADIALIS  ali model follow..  20  3...........................................................................................................................................................................................................................................................................................................................................................................................................................STRGSGRPWSAKENKAFERALAVYDKDWANVARAVEGRTPEEVKKHYEI...................................................................................................................................... 55
24 -9.4804u7a_A mol:protein length:826 Ribosome biogenesis protein ERB1  ali model follow..  10  1................................................................................................................................................................................................ASAALEVLFQGPGMMAKNNKTTEAKMSKKRAASEESDVEEDEDKLLSVDGLIDAEASESDEDDDEYESAVEEKESSSDKEAQDDSDDDSDAELNKLLAEEEGDGEEDYDSSEFSDDTTSLTDRLSGVKLQTIVDPNIYSKYADGSDRIIKPEINPVYDSDDSDAETQNT--------GNIPLDINGKRIMRPAKGSALDQLLDSIELPEG-----------------WTGLLDKNSGSSLNLTKEELELISKIMPLTAVPEPKRRFSKNEAKRVMKIVRAIRE....................................................................................................................... 298
25 -9.3202crg_A mol:protein length:70 Metastasis associated protein MTA3  ali model follow..  27  4............................................................................................................................................................................................................................................................................................................................................................................................................................GSSGMEEWSASEACLFEEALEKYGKDFNDIRQFLPWKSLTSIIEYYKTTDR................................................................................................................................... 58
26 -9.1302k9n_A mol:protein length:107 MYB24  ali model follow..  26  52...............................................................................................................................................................................................................................................................................................................................................................................................................................RTDPWSPEEDMLLDQKYAEYGPKWNKISKFLKNRSDNNIRNRWMMIARHR................................................................................................................................. 101
27 -9.0902m2e_A mol:protein length:73 DnaJ homolog subfamily C member 2  ali model follow..  24  1..............................................................................................................................................................................................................................................................................................................................................................................................................................QGFTPWTTEEQKLLEQALKTYPVNWKKIAEAVPGRTKKDCMKRYK....................................................................................................................................... 49
28 -9.0702cqr_A mol:protein length:73 DnaJ homolog subfamily C member 1  ali model follow..  16  1...............................................................................................................................................................................................................................................................................................................................................................................................................GSSGSSGSLRKERARSAEEPWTQNQQKLLELALQQYPRGWDKIARCVPSKSKEDCIARYKL...................................................................................................................................... 65
29 -9.0702yqk_A mol:protein length:63 Arginine-glutamic acid dipeptide repeats protein  ali model follow..  26  1........................................................................................................................................................................................................................................................................................................................................................................................................................GSSGSSGIEKCWTEDEVKRFVKGLRQYGKNFFRIRKLLPNKETGELITFYYYWKKTS................................................................................................................................. 58
30 -9.0203zqc_A mol:protein length:131 MYB3  ali model follow..  21  53...............................................................................................................................................................................................................................................................................................................................................................................................................................VKHAWTPEEDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNRWNSSISKRISTNSN........................................................................................................................... 108
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.

Li Z, Ye Y, Godzik A. Flexible Structural Neighborhood--a database of protein structural similarities and alignments. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D277-80.