Interface of input file ?

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3D-footprint cannot reliably estimate the specificity of 'beta and beta-prime subunits of DNA dependent RNA-polymerases', as these often contain single-stranded DNA molecules which accumulate many base contacts which distort the calculations.

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updated Thu Sep 12 02:59:22 2024

structure name	CRYO-EM STRUCTURE OF CII-DEPENDENT TRANSCRIPTION ACTIVATION COMPLEX
experiment	NMR
structural superfamily	Insert subdomain of RNA polymerase alpha subunit;C-terminal domain of RNA polymerase alpha subunit;RBP11-like subunits of RNA polymerase;cAMP-binding domain-like;"Winged helix" DNA-binding domain;P-loop containing nucleoside triphosphate hydrolases;Putative DNA-binding domain;beta and beta-prime subunits of DNA dependent RNA-polymerase;Nucleic acid-binding proteins;Rho N-terminal domain-like;Probable bacterial effector-binding domain;Homeodomain-like;lambda repressor-like DNA-binding domains;CheY-like;C-terminal effector domain of the bipartite response regulators;Translation proteins SH3-like domain;Ribosomal protein S3 C-terminal domain;Prokaryotic type KH domain KH-domain type II;
reference complex	3iyd_A 3iyd_H 5nss_G 6ldi_G 6vu3_A 6vz3_A 6xas_B 6xh7_H 6xl5_H 7c97_K 7vwz_G 7w5x_A 8igr_C 8jo2_H 8u3b_G 8upo_A 8y6u_I
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 8igr_A interface=30,31,32,33,35,36, rnealriesallnkiamlgtektaeavgvDKSQiSRwkrdwipkfsmllavlewgvvdddmarlarqvaailtn > 8igr_C interface=21,22,31,32,33,34,36,37, krnealriesallnkiamlgTEktaeavgvDKSQiSRwkrdwipkfsmllavlewgvvdddmarlarqvaailt > 8igr_D interface= nealriesallnkiamlgteKTaeavgvdkSQISrWKrdwipkfsmllavlewgvvdddmarlarqvaail > 8igr_G interface=243, teflkprlvdieqvssthakvtleplergfghtlgnalrrillssmpgcavteveidgvlheystkegvqedileillnlkglavrvqgkdeviltlnksgigpvtaadithdgdveivkpqhvichltdenasismrikvqrgrgyvpastrihseederpigrllvdacyspveriaynveaarveqrtdldklviemetngtidpeeairraatilaeqleafvdlillrpvddleltvRsanclkaeaihyigdlvqrtevellktpnlgkkslteikdvlasrglslg > 8igr_I interface=138,150,182,198,199,249,252,272,323,329,348,375,381,382,386,416,420,425,1089, vysytekkrirkdfgkrpqvldvpyllsiqldsfqkfieqdpegqygleaafrsvfpiqsysgnselqyvsyrlgepvfdvqecqirgvtysaplrvklrlviyereapegtvkdikeqevymgeiplmtdngtfviNgtervivsqlhRspgvffdsdkgkthssgkvlynariipyrgsWldfefdpkdnlfvriDRrrklpatiilralnytteqildlfyisetlrvdptndrlsalveiyrmmRpgEpptreaaeslfenlffsedRydlsavgrmkfnrsllreeiegsgilskddiidvmkklidirngkgevddIdhlgnRrirsvgemaenqfrvglvRveravkerlslgdldtlmpqdminakPisaavKEffgSsqlsqfmdqnnplseithkrrisalgpggLtreRagfeVrdvhpthygrvcpietpegpniglinslsvyaqtneygfletpyrkvtdgvvtdeihylsaieegnyviaqansnldeeghfvedlvtcrskgesslfsrdqvdymdvstqqvvsvgaslipflehddanralmganmqrqavptlradkplvgtgmeravavdsgvtavakrggvvqyvdasrivikvnedemypgeagidiynltkytrsnqntcinqmpcvslgepvergdvladgpstdlgelalgqnmrvafmpwngynfedsilvservvqedrfttihiqelacvsrdtklgpeeitadipnvgeaalskldesgivyigaevtggdilvgkvtpkgetqltpeekllraifgekasdvkdsslrvpngvsgtvidvqvftrdgvekdkraleieemqlkqakkdlseelqillkhefekkleakrrkitqgddlapgvlkivkvylavkrriqpgdkmagrhgnkgviskinpiedmpydengtpvdivlnplgvpsrmnigqilethlgmaakgigdkinamlkqqqevaklrefiqraydlgadvrqkvdlstfsdeevmrlaenlrkgmpiatpvfdgakeaeikellklgdlptsgqirlydgrtgeqferpvtvgymymlklnhlvddkmharstgsyslvtqqplggkaQfggqrfgemevwaleaygaaytlqemltvksddvngrtkmyknivdgnhqmepgmpesfnvllkeirslginielede > 8igr_J interface=197,412,775,776, efdaikialaspdmirswsfgevkkpetinyrtfkperdglfcarifgpvkdyeclcgkykrlkhrgvicekcgvevtqtkvrrermghielasptahiwflkslpsrigllldmplrdiervlyfesyvvieggmtnlerqqilteeqyldaleefgdefdakmgaeaiqallksmdleqeceqlreelnetnseTkrkkltkriklleafvqsgnkpewmiltvlpvlppdlrplvpldggrfatsdlndlyrrvinrnnrlkrlldlaapdiivrnekrmlqeavdalldngrrgraitgsnkrplksladmikgkqgrfrqnllgkrvdysgrsvitvgpylrlhqcglpkkmalelfkpfiygklelrglattikaakkmvereeavvwdildevirehpvllnraPtlhrlgiqafepvliegkaiqlhplvcaaynadfdgdqmavhvpltleaqlearalmmstnnilspangepiivpsqdvvlglyymtrdcvnakgegmvltgpkeaerlyrsglaslharvkvriteyekdangelvaktslkdttvgrailwmivpkglpysivnqalgkkaiskmlntcyrilglkptvifadqimytgfayaarsgasvgiddmvipekkheiiseaeaevaeiqeqfqsglvtagerynkvidiwaaandrvskammdnlqtetvinrdgqeekqvsfnsiymmadsgargsaaqirqlagmrglmakpdgsiietpitanfreglnvlqyfisthgarkgladtalkTAnsgyltrrlvdvaqdlvvteddcgthegimmtpvieggdvkeplrdrvlgrvtaedvlkpgtadilvprntllheqwcdlleensvdavkvrsvvscdtdfgvcahcygrdlarghiinkgeaigviaaqsigepgtqlglprvadlfearrpkepailaeisgivsfgketkgkrrlvitpvdgsdpyeemipkwrqlnvfegervergdvisdgpeaphdilrlrgvhavtryivnevqdvyrlqgvkindkhievivrqmlrkativnagssdflegeqveysrvkianreleangkvgatysrdllgitkaslatesfisaasfqettrvlteaavagkrdelrglkenvivgrlipagtgyayhqdrmrrraa > 8igr_L interface=7,8,11,14,19,81,83,84,94,99,117,118,121,123,126,127,128,130,131,132,135,138,139,142,152,153,156,163,166,203,211,215,217,220,281,282,283,284,286,287, grttdpVRmyMreMgtveLltregeidiakriedginqvqcsvaeypeaitylleqydrveamsigeakarrakkemveaNlRLvisiakkytNrglqFldliqegniglmkavdkFEyrRgYkfSTYaTWWirQaiTRsiAdqartiripVHmiEtinklnRisRqmlqemgreptpeelaermlmpedkirkvlkiakepIsmetpigDdedShLgdFiedttlelpldsatteslraathdvlagltareakvlrmrfgidmntdytleevgkqfdvTRERiRQieakalrklrhpsrsevlrsfl