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FASTA Sequence PDB Format mmCIF Format
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9DVU

Cryoem structure of rpaa bound to pkaibc dna and syn7942 rnap-siga holoenzyme

PDB DOI: 10.2210/pdb9dvu/pdb

Classification: DNA BINDING PROTEIN/DNA
Organism(s): Synechococcus Elongatus , Synechococcus Elongatus Pcc 7942 = Fachb-805 , Synthetic Construct

Deposited: 2024-10-08
Deposition Author(s): Corbett, K.D. , Fang, M. , Golden, S.E. , Gu, Y. , Leanca, M. , Liwang, A. , Matyszewski, M. , Yuzenkova, Y.

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.7 Å

9dvu
Literature

Cryoem structure of rpaa bound to pkaibc dna and syn7942 rnap-siga holoenzyme

Corbett, K.D. , Fang, M. , Golden, S.E. , Gu, Y. , Leanca, M. , Liwang, A. , Matyszewski, M. , Yuzenkova, Y.

Primary Citation of Related Structures: 9DVU


Nucleic Acids / Hybrid
Molecule Chains Sequence Length Organism Sequence
Non-template DNA 1 105 NA CTGAAAACCTGAAAAGGTAAAGGAGGTCTTAAGCTCGGCTCAATTTCTCTCTTTATCCTGTTAGATGGTTTGATTGCTGTTGCTACCCCGTTGATCTGCGTATGA
Template DNA 2 105 NA TCATACGCAGATCAACGGGGTAGCAACAGCAATCAAACCATCTAACAGGATAAAGAGAGAAATTGAGCCGAGCTTAAGACCTCCTTTACCTTTTCAGGTTTTCAG

Proteins
Molecule Chains Sequence Length Organism Sequence
DNA-directed RNA polymerase subunit alpha A 309 Synechococcus Elongatus , Synechococcus Elongatus Pcc 7942 = Fachb-805 , Synthetic Construct MTFQVECVESRTEADQGQYGRFSIEPLARGQGTTVGNALRRVLLSNLEGTAVTAVRIGGVNHEFATIPGVREDVLDILLNVRELVVHAHSPQPQIGRLRVVGPATVTAADVDFGPEVEVINPNHYIASLSEGATLEMELKVEWGTGYRAIDRSHDETTALDFLQLDAVFMPVRRVNYSVEDARVGESTAIDRLVLEVWTNGSLSPQEALSQAASCLVALFEPLKNVSVGSTHTADPEPTPESQTPIEDLQLSVRAYNCLKRAQVNSVADLLSYTYEDLLEIKNFGQKSAEEVVEALERIGIKLQESKVS
DNA-directed RNA polymerase subunit alpha B 309 Synechococcus Elongatus , Synechococcus Elongatus Pcc 7942 = Fachb-805 , Synthetic Construct MTFQVECVESRTEADQGQYGRFSIEPLARGQGTTVGNALRRVLLSNLEGTAVTAVRIGGVNHEFATIPGVREDVLDILLNVRELVVHAHSPQPQIGRLRVVGPATVTAADVDFGPEVEVINPNHYIASLSEGATLEMELKVEWGTGYRAIDRSHDETTALDFLQLDAVFMPVRRVNYSVEDARVGESTAIDRLVLEVWTNGSLSPQEALSQAASCLVALFEPLKNVSVGSTHTADPEPTPESQTPIEDLQLSVRAYNCLKRAQVNSVADLLSYTYEDLLEIKNFGQKSAEEVVEALERIGIKLQESKVS
DNA-directed RNA polymerase subunit beta C 1100 Synechococcus Elongatus , Synechococcus Elongatus Pcc 7942 = Fachb-805 , Synthetic Construct MAEQTQLAPAAFHLPDLVAIQRNSFRWFLEEGLIEELESFSPITDYTGKLELHFLGKQYKLKRPKYDVDEAKRRDGTYSVQMYVPTRLINKETGEIKEQEVFIGDLPLMTDRGTFIINGAERVIVNQIVRSPGVYYKSERDKNGRLTHNASLIPNRGAWLKFETDKNGLVWVRIDKTRKLSAQVLLKALGLSDNEIYDKLRHPEYYQKTIDKEGQFSEDEALMELYRKLRPGEPPTVSGGQQLLESRFFDPKRYDLGRVGRYKLNKKLGLNVADTVRTLTSEDILAAIDYLINLELDLGGCEVDDIDHLGNRRVRSVGELLQNQVRVGLNRLERIIRERMTVSDSDSLSPASLVNPKPLVAAIKEFFGSSQLSQFMDQTNPLAELTHKRRLSALGPGGLTRERAGFAVRDIHPSHYGRICPIETPEGPNAGLIGSLATHARVNDYGFIETPFWRVEEGRVRKDLAPVYMTADQEDDLRVAPGDVATDDAGYILGTTIPVRYRQDFTTTTPERVDYVALSPVQIISVATSLIPFLEHDDANRALMGSNMQRQAVPLLRPERPLVGTGLEPQAARDSGMVITSPVDGTISYVDATHIEVTADTGEKYGYALQKYQRSNQDTCLNQRPIVFEGDRVQRGQVIADGSATEKGELALGQNILVAYMPWEGYNYEDAILISERLVYDDVYTSIHIEKFEIEARQTKLGPEEITREIPNVGEDALRQLDENGIIRVGAWVESGDILVGKVTPKGESDQPPEEKLLRAIFGEKARDVRDNSLRVPNGEKGRVVDVRLFTREQGDELPPGANMVVRVYVAQKRKIQVGDKMAGRHGNKGIISRILPCEDMPYLPDGTPLDIVLNPLGVPSRMNVGQVFECMLGWAGQLLDARFKVTPFDEMYGAEASRLTVNAKLSEAREQTGQPWVFSDDEPGKIQVYDGRTGEPFDRPVTVGRAYMLKLVHLVDDKIHARSTGPYSLVTQQPLGGKAQQGGQRFGEMEVWALEAYGAAYILQELLTVKSDDMQGRNEALNAIVKGKAIPRPGTPESFKVLMRELQSLCLDIAVYKASTEDYEEDKEVDLMADVNQRRTPSRPTYESMSVGDIDDDDD
DNA-directed RNA polymerase subunit gamma D 624 Synechococcus Elongatus , Synechococcus Elongatus Pcc 7942 = Fachb-805 , Synthetic Construct MAKQEQRFDYVKIALASPERIRQWGERTLPNGQVVGEVTKPETINYRTLKPEMDGLFCEKIFGPAKDWECHCGKYKRVRHRGIVCERCGVEVTESRVRRHRMGFIKLAAPVAHVWYLKGIPSYIAILLDMPLRDVEQIVYFNSYVVLNPGNHSELQYKQLLNEDQWMEIEDQIYAEESDLEGIEVGIGAEALQQLLQDLNLNEESEKLRQEIAESKGQKRAKLIKRLRVIDNFIGTESRPEWMVLNVIPVIPPDLRPMVQLDGGRFATSDLNDLYRRVINRNNRLARLQEILAPEIIVRNEKRMLQEAVDALIDNGRRGRTVVGANNRPLKSLSDIIEGKQGRFRQNLLGKRVDYSGRSVIVVGPNLKIHQCGLPREMAIELFQPFVIHRLIKNHSINNIKQAKKLIQKNDPLIWDVLEEVIEGHPVMLNRAPTLHRLGIQAFEPILVEGRAIQLHPLVCPAFNADFDGDQMAVHVPLSIEAQAEARMLMLASGNILSPATGQPIVTPSQDMVLGCYYLTAENPGAQKGAGRYFANLEDAIRAFEQGSVDLHAWVWVRFDGEVESEGESDEPESVVAADDGTVTKTYRFRRIRETEDGQRLSQYVKTTPGRILFNNTVQTALIH
DNA-directed RNA polymerase subunit omega E 76 Synechococcus Elongatus , Synechococcus Elongatus Pcc 7942 = Fachb-805 , Synthetic Construct MLQRFDLDSQDLLFKAESLIVNSTNRYHVTLQIARRAKQARYEEMENLSEETGIKPVLRAILEMSDELNQPEIIGG
DNA-directed RNA polymerase subunit beta' F 1318 Synechococcus Elongatus , Synechococcus Elongatus Pcc 7942 = Fachb-805 , Synthetic Construct MAEAKSAPIFRNRVIDKKQLKKLIGWTFAHYGTAKTAVVADDLKALGFRYATRAGVSISIDDLKVPGSKAELLESAEKRIQETEDRYTRGEITEVERFQKVIDTWANTNDELTDRVVKNFRESDPLNSVYMMAFSGARGNISQVRQLVGMRGLMANPQGEIIDLPIKTNFREGLTVTEYIISSYGARKGLVDTALRTADSGYLTRRLVDVSQDVIIHEVDCGTSRGLFVEAMTDGDRILIPISQRLLGRVTAEAVLDPSTDEVLAEAGQDINEDLANRIEKAGIKKVKVRSPLTCEAARSVCQKCYGWSLAHAQMVDMGEAVGIIAAQSIGEPGTQLTMRTFHTGGVFTGETARLLRAPVAGTIKLGKKARTRPYRTRHGEEALLAEANFDLVLEGKGRKETFAILQGSTIFVQDGDKVAAEAILAEVPVSGRTKRTVEKATKDVATDLAGEIRFQDIVPEEKTDRQGNTTRIAQRGGLLWVLAGDVYNLLPGAEPTVKNGDRVEVGDVLAETKLTTERGGTVRMGEDNGSSTHREVEIITASVVLDTATVKAEASQGREHYVIETKGGQRFNLLAAPGTKVTTGHVVAELIDSRYRTQTGGLLKYSGVEISKKGRAKAKQGYEVTKGGTLLWIPEETHEVNKDISLLNVEDGQLVEAGTEVVKDIFCQTTGIVSVTQNNDILREIVIKPGDVHVLDDPDTAAKYDEGRLVNAGEEVFPGLTAEQLVWAEAVDGTDGPLLLLRPVQELVIPDEPPVPSQDSSQESSSRSIRLRAVQRLQFQDGERIKSVEGVDLLRTQLVLESEEGSSQLSADIELLPDSKDPETLRLQLVIIEPVVIRRDVASDTTHGSTHTELRVKDGQKVKPGAVIACTQIQCKEAGVVRGIQEGSEAVRRLLVERERDCVTLDLDVTAATQLQPGSLIVAGTQLVDGIIAPESGEVRAIAPGQLQLRIARPYRVSQGAVLHVEDKGLVQRGDNLVLLVFERAKTGDIIQGLPRIEELLEARKPKEACILARRPGVAHINYSDDDAIDIQVIEADGTQADYPVGPGQPLIISDGETVDAGQALTDGPANPHDLLEIYYDYFREQLGEDYEAALESLRRVQALLVNEVQSVYQSQGIDISDKHIEVIVRQMTSKVRIDDGGDTIMLPGELHELREVYNSNNTMALTGMAPAQFTPVLLGITKASLNTNSFISAASFQETTRVLTEAAIEGKSDWLRGLKENVIIGRLIPAGTGFKAYEESLLTDVDGGYEDRVYDDDLADVVIDDRAARSYTLNEGRDFSRSMTFAEGESMILDDGEELIDDSSASLRNLVDVDED
RNA polymerase sigma factor SigA1 G 399 Synechococcus Elongatus , Synechococcus Elongatus Pcc 7942 = Fachb-805 , Synthetic Construct MTQLISIDKEQEEAGMTQATELLDPALKPAETKAKRSSRKKATTAVVEPATTIAPTADVDAIDDEDSVGEDEDAAAKAKAKVRKTYTEDSIRLYLQEIGRIRLLRADEEIELARQIADLLALERIRDELLEQLDRLPSDAEWAAAVDSPLDEFRRRLFRGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDEVAKNLLREDLEGVLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVTRERIRQIEAKALRKLRHPNRNSILKEYIR
DNA-binding dual master transcriptional regulator RpaA R 249 Synechococcus Elongatus , Synechococcus Elongatus Pcc 7942 = Fachb-805 , Synthetic Construct MKPRILVIDDDSAILELVAVNLEMSGYDVRKAEDGIKGQALAVQLVPDLIMLDLMLPRVDGFTVCQRLRRDERTAEIPVLMLTALGQTQDKVEGFNAGADDYLTKPFEVEEMLARVRALLQRTDRIPHAARHSEILSYGPLTLIPERFEAIWFNRTVKLTHLEFELLHCLLQRHGQTVAPSEILKEVWGYDPDDDIETIRVHIRHLRTKLEPDPRHPRYIKTVYGAGYCLELPAETELHQHADQFPSAS
DNA-binding dual master transcriptional regulator RpaA S 249 Synechococcus Elongatus , Synechococcus Elongatus Pcc 7942 = Fachb-805 , Synthetic Construct MKPRILVIDDDSAILELVAVNLEMSGYDVRKAEDGIKGQALAVQLVPDLIMLDLMLPRVDGFTVCQRLRRDERTAEIPVLMLTALGQTQDKVEGFNAGADDYLTKPFEVEEMLARVRALLQRTDRIPHAARHSEILSYGPLTLIPERFEAIWFNRTVKLTHLEFELLHCLLQRHGQTVAPSEILKEVWGYDPDDDIETIRVHIRHLRTKLEPDPRHPRYIKTVYGAGYCLELPAETELHQHADQFPSAS
Experimental Data

Method: ELECTRON MICROSCOPY

Deposited Date: 2024-10-08
Deposition Author(s): Corbett, K.D. , Fang, M. , Golden, S.E. , Gu, Y. , Leanca, M. , Liwang, A. , Matyszewski, M. , Yuzenkova, Y.