2024-07-10 REL PDBe PDBe PDBe 2020-12-23 2021-12-01 2021-12-01 2024-07-10 Biotechnology and Biological Sciences Research Council (BBSRC) BB/N007816/1 China Medical Research Council (MRC, United Kingdom) MR/P007503/1 China National Science Foundation (NSF, China) 81991531 China Structures of class I bacterial transcription complexes Ye FZ Hao M antibiotic resistance, bacterial transcription activator, cryoEM, TRANSCRIPTION Hao M Ye F Jovanovic M Kotta-Loizou I Xu Q Qin X Buck M Zhang X Wang M Structures of Class I and Class II Transcription Complexes Reveal the Molecular Basis of RamA-Dependent Transcription Activation. Adv Sci DE 9 e2103669 e2103669 2022 34761556 doi:10.1002/advs.202103669 2198-3844 7beg FULLOVERLAP Class I transcription complex Class I transcription complex 0 1 2 3 4 5 6 7 8 0.60 DNA-directed RNA polymerase 1 1 2 3 4 5 6 7 8 Escherichia coli Class I transcription complex 1 1 2 3 4 5 6 7 8 Klebsiella pneumoniae DNA-directed RNA polymerase subunit alpha Escherichia coli 0.036558679999999996 2 Escherichia coli BL21(DE3) LEVO MQGSVTEFLKPRLVDIEQVSSTHAKVTLEPLERGFGHTLGNALRRILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILE ILLNLKGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVKPQHVICHLTDENASISMRIKVQRGRGYVPASTRIH SEEDERPIGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAIRRAATILAEQLEAFVDLRDVRQP EVKEEKPEFDPILLRPVDDLELTVRSANCLKAEAIHYIGDLVQRTEVELLKTPNLGKKSLTEIKDVLASRGLSLGMRLEN WPPASIADE P0A7Z4 2.7.7.6 DNA-directed RNA polymerase subunit beta Escherichia coli 0.150820875 1 Escherichia coli BL21(DE3) LEVO MVYSYTEKKRIRKDFGKRPQVLDVPYLLSIQLDSFQKFIEQDPEGQYGLEAAFRSVFPIQSYSGNSELQYVSYRLGEPVF DVQECQIRGVTYSAPLRVKLRLVIYEREAPEGTVKDIKEQEVYMGEIPLMTDNGTFVINGTERVIVSQLHRSPGVFFDSD KGKTHSSGKVLYNARIIPYRGSWLDFEFDPKDNLFVRIDRRRKLPATIILRALNYTTEQILDLFFEKVIFEIRDNKLQME LVPERLRGETASFDIEANGKVYVEKGRRITARHIRQLEKDDVKLIEVPVEYIAGKVVAKDYIDESTGELICAANMELSLD LLAKLSQSGHKRIETLFTNDLDHGPYISETLRVDPTNDRLSALVEIYRMMRPGEPPTREAAESLFENLFFSEDRYDLSAV GRMKFNRSLLREEIEGSGILSKDDIIDVMKKLIDIRNGKGEVDDIDHLGNRRIRSVGEMAENQFRVGLVRVERAVKERLS LGDLDTLMPQDMINAKPISAAVKEFFGSSQLSQFMDQNNPLSEITHKRRISALGPGGLTRERAGFEVRDVHPTHYGRVCP IETPEGPNIGLINSLSVYAQTNEYGFLETPYRKVTDGVVTDEIHYLSAIEEGNYVIAQANSNLDEEGHFVEDLVTCRSKG ESSLFSRDQVDYMDVSTQQVVSVGASLIPFLEHDDANRALMGANMQRQAVPTLRADKPLVGTGMERAVAVDSGVTAVAKR GGVVQYVDASRIVIKVNEDEMYPGEAGIDIYNLTKYTRSNQNTCINQMPCVSLGEPVERGDVLADGPSTDLGELALGQNM RVAFMPWNGYNFEDSILVSERVVQEDRFTTIHIQELACVSRDTKLGPEEITADIPNVGEAALSKLDESGIVYIGAEVTGG DILVGKVTPKGETQLTPEEKLLRAIFGEKASDVKDSSLRVPNGVSGTVIDVQVFTRDGVEKDKRALEIEEMQLKQAKKDL SEELQILEAGLFSRIRAVLVAGGVEAEKLDKLPRDRWLELGLTDEEKQNQLEQLAEQYDELKHEFEKKLEAKRRKITQGD DLAPGVLKIVKVYLAVKRRIQPGDKMAGRHGNKGVISKINPIEDMPYDENGTPVDIVLNPLGVPSRMNIGQILETHLGMA AKGIGDKINAMLKQQQEVAKLREFIQRAYDLGADVRQKVDLSTFSDEEVMRLAENLRKGMPIATPVFDGAKEAEIKELLK LGDLPTSGQIRLYDGRTGEQFERPVTVGYMYMLKLNHLVDDKMHARSTGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEA YGAAYTLQEMLTVKSDDVNGRTKMYKNIVDGNHQMEPGMPESFNVLLKEIRSLGINIELEDE P0A8V4 2.7.7.6 DNA-directed RNA polymerase subunit beta' Escherichia coli 0.15536678099999998 1 Escherichia coli BL21(DE3) LEVO MKDLLKFLKAQTKTEEFDAIKIALASPDMIRSWSFGEVKKPETINYRTFKPERDGLFCARIFGPVKDYECLCGKYKRLKH RGVICEKCGVEVTQTKVRRERMGHIELASPTAHIWFLKSLPSRIGLLLDMPLRDIERVLYFESYVVIEGGMTNLERQQIL TEEQYLDALEEFGDEFDAKMGAEAIQALLKSMDLEQECEQLREELNETNSETKRKKLTKRIKLLEAFVQSGNKPEWMILT VLPVLPPDLRPLVPLDGGRFATSDLNDLYRRVINRNNRLKRLLDLAAPDIIVRNEKRMLQEAVDALLDNGRRGRAITGSN KRPLKSLADMIKGKQGRFRQNLLGKRVDYSGRSVITVGPYLRLHQCGLPKKMALELFKPFIYGKLELRGLATTIKAAKKM VEREEAVVWDILDEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCAAYNADFDGDQMAVHVPLTLEAQLEA RALMMSTNNILSPANGEPIIVPSQDVVLGLYYMTRDCVNAKGEGMVLTGPKEAERLYRSGLASLHARVKVRITEYEKDAN GELVAKTSLKDTTVGRAILWMIVPKGLPYSIVNQALGKKAISKMLNTCYRILGLKPTVIFADQIMYTGFAYAARSGASVG IDDMVIPEKKHEIISEAEAEVAEIQEQFQSGLVTAGERYNKVIDIWAAANDRVSKAMMDNLQTETVINRDGQEEKQVSFN SIYMMADSGARGSAAQIRQLAGMRGLMAKPDGSIIETPITANFREGLNVLQYFISTHGARKGLADTALKTANSGYLTRRL VDVAQDLVVTEDDCGTHEGIMMTPVIEGGDVKEPLRDRVLGRVTAEDVLKPGTADILVPRNTLLHEQWCDLLEENSVDAV KVRSVVSCDTDFGVCAHCYGRDLARGHIINKGEAIGVIAAQSIGEPGTQLTMRTFHIGGAASRAAAESSIQVKNKGSIKL SNVKSVVNSSGKLVITSRNTELKLIDEFGRTKESYKVPYGAVLAKGDGEQVAGGETVANWDPHTMPVITEVSGFVRFTDM IDGQTITRQTDELTGLSSLVVLDSAERTAGGKDLRPALKIVDAQGNDVLIPGTDMPAQYFLPGKAIVQLEDGVQISSGDT LARIPQESGGTKDITGGLPRVADLFEARRPKEPAILAEISGIVSFGKETKGKRRLVITPVDGSDPYEEMIPKWRQLNVFE GERVERGDVISDGPEAPHDILRLRGVHAVTRYIVNEVQDVYRLQGVKINDKHIEVIVRQMLRKATIVNAGSSDFLEGEQV EYSRVKIANRELEANGKVGATYSRDLLGITKASLATESFISAASFQETTRVLTEAAVAGKRDELRGLKENVIVGRLIPAG TGYAYHQDRMRRRAAGEAPAAPQVTAEDASASLAELLNAGLGGSDNE P0A8T8 2.7.7.6 DNA-directed RNA polymerase subunit omega Escherichia coli 0.010249547 1 Escherichia coli BL21(DE3) LEVO MARVTVQDAVEKIGNRFDLVLVAARRARQMQVGGKDPLVPEENDKTTVIALREIEEGLINNQILDVRERQEQQEQEAAEL QAVTAIAEGRR P0A800 2.7.7.6 RNA polymerase sigma factor RpoD Escherichia coli 0.07234449999999999 1 Escherichia coli BL21(DE3) LEVO MAHHHHHHSSGLEVLFQMEQNPQSQLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDAD DLMLAENTADEDAAEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGINQVQCSVAEYPEAITY LLEQYDRVEAEEARLSDLITGFVDPNAEEDLAPTATHVGSELSQEDLDDDEDEDEEDGDDDSADDDNSIDPELAREKFAE LRAQYVVTRDTIKAKGRSHATAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFI TLFTGNETSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQKLQQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEAN LRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKL NRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAA THDVLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDD Q0P6L9 Class I pacrA promoter non-template DNA Klebsiella pneumoniae 0.029090671999999998 1 (DT)(DT)(DG)(DG)(DT)(DT)(DT)(DT)(DT)(DC)(DG)(DT)(DG)(DC)(DC)(DA)(DT)(DA)(DG)(DG) (DT)(DT)(DA)(DA)(DT)(DG)(DA)(DC)(DT)(DT)(DT)(DA)(DC)(DA)(DG)(DA)(DG)(DG)(DT)(DT) (DA)(DC)(DG)(DT)(DT)(DT)(DA)(DC)(DA)(DT)(DA)(DC)(DA)(DT)(DT)(DT)(DG)(DT)(DG)(DA) (DA)(DT)(DG)(DT)(DA)(DT)(DG)(DT)(DA)(DC)(DC)(DA)(DT)(DG)(DA)(DA)(DC)(DG)(DT)(DA) (DC)(DC)(DA)(DT)(DA)(DA)(DT)(DA)(DG)(DA)(DA)(DA)(DG)(DA) AP023264.1 DNA Class I pacrA promoter template DNA Klebsiella pneumoniae 0.028886587999999998 1 (DT)(DC)(DT)(DT)(DT)(DC)(DT)(DA)(DT)(DT)(DA)(DT)(DG)(DG)(DT)(DC)(DA)(DT)(DG)(DC) (DT)(DA)(DT)(DG)(DG)(DT)(DA)(DC)(DA)(DT)(DA)(DC)(DA)(DT)(DT)(DC)(DA)(DC)(DA)(DA) (DA)(DT)(DG)(DT)(DA)(DT)(DG)(DT)(DA)(DA)(DA)(DC)(DG)(DT)(DA)(DA)(DC)(DC)(DT)(DC) (DT)(DG)(DT)(DA)(DA)(DA)(DG)(DT)(DC)(DA)(DT)(DT)(DA)(DA)(DC)(DC)(DT)(DA)(DT)(DG) (DG)(DC)(DA)(DC)(DG)(DA)(DA)(DA)(DA)(DA)(DC)(DC)(DA)(DA) CP052372.1 DNA Transcriptional activator RamA Klebsiella pneumoniae 0.01551052 1 Escherichia coli BL21(DE3) LEVO MAHHHHHHSSGLEVLFQMTISAQVIDTIVEWIDDNLHQPLRIDDIARHAGYSKWHLQRLFLQYKGESLGRYIRERKLLLA ARDLRDTDQRVYDICLKYGFDSQQTFTRVFTRTFNQPPGAYRKENHSRAH Q48413 singleParticle particle 0.5 8.0 20.0 TRIS 50.0 NaCl
20 mM Tris pH 8, 50 mM NaCl
 Quantifoil R1.2/1.3 COPPER 200 CARBON HOLEY GLOW DISCHARGE OTHER ETHANE 100 277 FEI VITROBOT MARK IV FEI TITAN KRIOS OTHER BRIGHT FIELD FIELD EMISSION GUN 300 2.7 75000.0 FEI TITAN KRIOS AUTOGRID HOLDER FEI FALCON III (4k x 4k) 1 3472 55.0 1 1328947 4YLP 1 FOURIER SPACE 4.2 FSC 0.143 CUT-OFF 39164 MAXIMUM LIKELIHOOD RELION MAXIMUM LIKELIHOOD RELION 3 emd_12157.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 368 368 368 0 0 0 368 368 368 399.28003 399.28003 399.28003 90.0 90.0 90.0 X Y Z -0.094454914 0.21741343 -0.000024551542 0.0058762426 1.085 1.085 1.085 0.01 AUTHOR local resolution map 4YLP PDB experimental model RIGID BODY FIT REAL