2024-11-13 REL PDBe PDBe PDBe 2021-11-03 2022-01-26 2022-01-26 2024-11-13 Cancer Research UK CR-UK C47547/A21536 United Kingdom Wellcome Trust 200818/Z/16/Z United Kingdom Abascal-Palacios G Jochem L Pla-Prats C Beuron F Vannini A Transcription, RNA Pol III, Ty3 Retrotransposon, Intasome, DNA BINDING PROTEIN Abascal-Palacios G Jochem L Pla-Prats C Beuron F Vannini A Nat Commun UK 12 6992 6992 2021 34848735 doi:10.1038/s41467-021-27338-w 2041-1723 7q5b FULLOVERLAP Ty3 retrotransposon engaged with TFIIIB transcription factor and tRNA promoter Ty3 retrotransposon engaged with TFIIIB transcription factor and tRNA promoter 0 1 2 3 4 5 6 7 8 9 DNA 1 1 2 3 4 9 Saccharomyces cerevisiae S288C TFIIIB transcription factor 1 5 6 7 8 Saccharomyces cerevisiae S288C DNA (56-MER) Saccharomyces cerevisiae S288C 0.017165039 1 (DG)(DA)(DG)(DC)(DC)(DC)(DG)(DT)(DA)(DA)(DT)(DA)(DC)(DA)(DA)(DC)(DA)(DG)(DA)(DT) (DT)(DT)(DT)(DT)(DT)(DC)(DT)(DC)(DT)(DT)(DA)(DG)(DT)(DT)(DT)(DT)(DA)(DA)(DA)(DT) (DT)(DT)(DT)(DT)(DA)(DT)(DA)(DT)(DT)(DT)(DC)(DG)(DT)(DC)(DG)(DA) DNA DNA (31-MER) Saccharomyces cerevisiae S288C 0.009484192999999998 1 (DG)(DA)(DG)(DC)(DC)(DC)(DG)(DT)(DA)(DA)(DT)(DA)(DC)(DA)(DA)(DC)(DA)(DA)(DA)(DA) (DT)(DC)(DC)(DA)(DA)(DC)(DA)(DA)(DA)(DT)(DA) DNA DNA (34-MER) Saccharomyces cerevisiae S288C 0.010532895 1 (DT)(DC)(DG)(DA)(DC)(DG)(DA)(DA)(DA)(DT)(DA)(DT)(DA)(DA)(DA)(DA)(DA)(DT)(DT)(DT) (DA)(DA)(DA)(DA)(DC)(DT)(DA)(DA)(DG)(DA)(DG)(DA)(DA)(DA) DNA DNA (9-MER) Saccharomyces cerevisiae S288C 0.002751818 1 (DT)(DA)(DT)(DT)(DT)(DG)(DT)(DT)(DG) DNA Transposon Ty3-G Gag-Pol polyprotein Saccharomyces cerevisiae S288C 0.17855601599999998 4 Escherichia coli LEVO MSFMDQIPGGGNYPKLPVECLPNFPIQPSLTFRGRNDSHKLKNFISEIMLNMSMISWPNDASRIVYCRRHLLNPAAQWAN DFVQEQGILEITFDTFIQGLYQHFYKPPDINKIFNAITQLSEAKLGIERLNQRFRKIWDRMPPDFMTEKAAIMTYTRLLT KETYNIVRMHKPETLKDAMEEAYQTTALTERFFPGFELDADGDTIIGATTHLQEEYDSDYDSEDNLTQNGYVHTVRTRRS YNKPMSNHRNRRNNNPSREECIKNRLCFYCKKEGHRLNECRARKAVLTDLELESKDQQTPFIKTLPIVHYIAIPEMDNTA EKTIKIQNTKVKTLFDSGSPTSFIRRDIVELLKYEIYETPPLRFRGFVATKSAVTSEAVTIDLKINDLHITLAAYILDNM DYQLLIGNPILRRYPKILHTVLNTRESPDSLKPKTYRSETVNNVRTYSAGNRGNPRNIKLSFAPTILEATDPKSAGNRGD SRTKTLSLATTTPAAIDPLTTLDNPGSTQSTFAQFPIPEEASILEEDGKYSNVVSTIQSVEPNATDHSNKDTFCTLPVWL QQKYREIIRNDLPPRPADINNIPVKHDIEIKPGARLPRLQPYHVTEKNEQEINKIVQKLLDNKFIVPSKSPCSSPVVLVP KKDGTFRLCVDYRTLNKATISDPFPLPRIDNLLSRIGNAQIFTTLDLHSGYHQIPMEPKDRYKTAFVTPSGKYEYTVMPF GLVNAPSTFARYMADTFRDLRFVNVYLDDILIFSESPEEHWKHLDTVLERLKNENLIVKKKKCKFASEETEFLGYSIGIQ KIAPLQHKCAAIRDFPTPKTVKQAQRFLGMINYYRRFIPNCSKIAQPIQLFICDKSQWTEKQDKAIDKLKDALCNSPVLV PFNNKANYRLTTDASKDGIGAVLEEVDNKNKLVGVVGYFSKSLESAQKNYPAGELELLGIIKALHHFRYMLHGKHFTLRT DHISLLSLQNKNEPARRVQRWLDDLATYDFTLEYLAGPKNVVADAISRAVYTITPETSRPIDTESWKSYYKSDPLCSAVL IHMKELTQHNVTPEDMSAFRSYQKKLELSETFRKNYSLEDEMIYYQDRLVVPIKQQNAVMRLYHDHTLFGGHFGVTVTLA KISPIYYWPKLQHSIIQYIRTCVQCQLIKSHRPRLHGLLQPLPIAEGRWLDISMDFVTGLPPTSNNLNMILVVVDRFSKR AHFIATRKTLDATQLIDLLFRYIFSYHGFPRTITSDRDVRMTADKYQELTKRLGIKSTMSSANHPQTDGQSERTIQTLNR LLRAYASTNIQNWHVYLPQIEFVYNSTPTRTLGKSPFEIDLGYLPNTPAIKSDDEVNARSFTAVELAKHLKALTIQTKEQ LEHAQIEMETNNNQRRKPLLLNIGDHVLVHRDAYFKKGAYMKVQQIYVGPFRVVKKINDNAYELDLNSHKKKHRVINVQF LKKFVYRPDAYPKNKPISSTERIKRAHEVTALIGIDTTHKTYLCHMQDVDPTLSVEYSEAEFCQIPERTRRSILANFRQL YETQDNPEREEDVVSQNEICQYDNTSP Q99315 Transcription factor TFIIIB component B'' Saccharomyces cerevisiae S288C 0.067801906 1 Escherichia coli LEVO MSSIVNKSGTRFAPKVRQRRAATGGTPTPKPRTPQLFIPESKEIEEDNSDNDKGVDENETAIVEKPSLVGERSLEGFTLT GTNGHDNEIGDEGPIDASTQNPKADVIEDNVTLKPAPLQTHRDQKVPRSSRLASLSKDNESRPSFKPSFLDSSSNSNGTA RRLSTISNKLPKKIRLGSITENDMNLKTFKRHRVLGKPSSAKKPAGAHRISIVSKISPPTAMTDSLDRNEFSSETSTSRE ADENENYVISKVKDIPKKVRDGESAKYFIDEENFTMAELCKPNFPIGQISENFEKSKMAKKAKLEKRRHLRELRMRARQE FKPLHSLTKEEQEEEEEKRKEERDKLLNADIPESDRKAHTAIQLKLNPDGTMAIDEETMVVDRHKNASIENEYKEKVDEN PFANLYNYGSYGRGSYTDPWTVEEMIKFYKALSMWGTDFNLISQLYPYRSRKQVKAKFVNEEKKRPILIELALRSKLPPN FDEYCCEIKKNIGTVADFNEKLIELQNEHKHHMKEIEEAKNTAKEEDQTAQRLNDANLNKKGSGGIMTNDLKVYRKTEVV LGTIDDLKRKKLKERNNDDNEDNEGSEEEPEIDQ P46678 TATA-box-binding protein Saccharomyces cerevisiae S288C 0.027042275 1 Escherichia coli LEVO MADEERLKEFKEANKIVFDPNTRQVWENQNRDGTKPATTFQSEEDIKRAAPESEKDTSATSGIVPTLQNIVATVTLGCRL DLKTVALHARNAEYNPKRFAAVIMRIREPKTTALIFASGKMVVTGAKSEDDSKLASRKYARIIQKIGFAAKFTDFKIQNI VGSCDVKFPIRLEGLAFSHGTFSSYEPELFPGLIYRMVKPKIVLLIFVSGKIVLTGAKQREEIYQAFEAIYPVLSEFRKM P13393 Transcription factor IIIB 70 kDa subunit Saccharomyces cerevisiae S288C 0.067011477 1 Escherichia coli LEVO MPVCKNCHGTEFERDLSNANNDLVCKACGVVSEDNPIVSEVTFGETSAGAAVVQGSFIGAGQSHAAFGGSSALESREATL NNARRKLRAVSYALHIPEYITDAAFQWYKLALANNFVQGRRSQNVIASCLYVACRKEKTHHMLIDFSSRLQVSVYSIGAT FLKMVKKLHITELPLADPSLFIQHFAEKLDLADKKIKVVKDAVKLAQRMSKDWMFEGRRPAGIAGACILLACRMNNLRRT HTEIVAVSHVAEETLQQRLNEFKNTKAAKLSVQKFRENDVEDGEARPPSFVKNRKKERKIKDSLDKEEMFQTSEEALNKN PILTQVLGEQELSSKEVLFYLKQFSERRARVVERIKATNGIDGENIYHEGSENETRKRKLSEVSIQNEHVEGEDKETEGT EEKVKKVKTKTSEEKKENESGHFQDAIDGYSLETDPYCPRNLHLLPTTDTYLSKVSDDPDNLEDVDDEELNAHLLNEEAS KLKERIWIGLNADFLLEQESKRLKQEADIATGNTSVKKKRTRRRNNTRSDEPTKTVDAAAAIGLMSDLQDKSGLHAALKA AEESGDFTTADSVKNMLQKASFSKKINYDAIDGLFR P29056 DNA (19-MER) Saccharomyces cerevisiae S288C 0.005882792 2 (DG)(DG)(DT)(DG)(DT)(DT)(DG)(DT)(DA)(DT)(DT)(DA)(DC)(DG)(DG)(DG)(DC)(DT)(DC) DNA singleParticle particle 0.1 8.0 40.0 Tris-HCl 80.0 NaCl 7.0 MgCl2 1.0 DTT Quantifoil R1.2/1.3 COPPER 400 CARBON CONTINUOUS GLOW DISCHARGE 30

Glow discharged at 15 mA

ETHANE 100 291.15 FEI VITROBOT MARK IV

This sample was monodisperse

FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 1.7 3.2 130000.0 FEI TITAN KRIOS AUTOGRID HOLDER GATAN K2 SUMMIT (4k x 4k) 1 4974 7.0 50.0 FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 2.4 4.0 81000.0 FEI TITAN KRIOS AUTOGRID HOLDER GATAN K3 (6k x 4k) 1 2437 5.3 70.0 2 628998 Generated using Phyre2 modelling webserver 2 FOURIER SPACE 3.98 FSC 0.143 CUT-OFF RELION 3.1 101469 MAXIMUM LIKELIHOOD RELION 3.0.4 MAXIMUM LIKELIHOOD RELION 3.0.4 3 RELION 3.0.4

Hierarchical Classification Process

OTHER Correlation Coefficient REAL