3D-footprint cannot reliably estimate the specificity of 'Nucleic acid-binding proteins', as they bind to single-stranded DNA and thus accumulate more base contacts.

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updated Wed Sep 11 00:35:59 2024

structure name	CUER-TRANSCRIPTION ACTIVATION COMPLEX WITH RNA TRANSCRIPT
source	ESCHERICHIA COLI
experiment	NMR
structural superfamily	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;Insert subdomain of RNA polymerase alpha subunit;RBP11-like subunits of RNA polymerase;C-terminal domain of RNA polymerase alpha subunit;lambda repressor-like DNA-binding domains;CheY-like;C-terminal effector domain of the bipartite response regulators;
reference complex	3iyd_H 5nss_G 6jnx_P 6ldi_G 6p18_P 6vu3_A 6vz3_A 6xas_B 6xh7_H 6xl5_H 7vwz_G 7w5x_A 8igr_C 8jo2_H 8u3b_G 8upo_A
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 6xh8_C interface=173,181,183,197,198,199,369,372,373,392,468,471,506,540, ysytekkrirkdfgkrpqvldvpyllsiqldsfqkfieqdpegqygleaafrsvfpiqsysgnselqyvsyrlgepvfdvqecqirgvtysaplrvklrlviyereapegtvkdikeqevymgeiplmtdngtfvingtervivsqlhrspgvffdsdkgkthssgkvlynaRiipyrgsWlDfefdpkdnlfvriDRRrklpatiilralnytteqildlffekvifeirdnklqmelvperlrgetasfdieangkvyvekgrritarhirqlekddvklievpveyiagkvvakdyidestgelicaanmelsldllaklsqsghkrietlftndldhgpyisetlrvdptndrlsalveiyrmmRpgEPptreaaeslfenlffsedRydlsavgrmkfnrsllreeiegsgilskddiidvmkklidirngkgevddidhlgnrrirsvgemaenqfrvglvRveRavkerlslgdldtlmpqdminakpisaavkeffgSsqlsqfmdqnnplseithkrrisalgpggltreRagfevrdvhpthygrvcpietpegpniglinslsvyaqtneygfletpyrkvtdgvvtdeihylsaieegnyviaqansnldeeghfvedlvtcrskgesslfsrdqvdymdvstqqvvsvgaslipflehddanralmganmqrqavptlradkplvgtgmeravavdsgvtavakrggvvqyvdasrivikvnedemypgeagidiynltkytrsnqntcinqmpcvslgepvergdvladgpstdlgelalgqnmrvafmpwngynfedsilvservvqedrfttihiqelacvsrdtklgpeeitadipnvgeaalskldesgivyigaevtggdilvgkvtpkgetqltpeekllraifgekasdvkdsslrvpngvsgtvidvqvftrdgvekdkraleieemqlkqakkdlseelqileaglfsriravlvaggveaekldklprdrwlelgltdeekqnqleqlaeqydelkhefekkleakrrkitqgddlapgvlkivkvylavkrriqpgdkmagrhgnkgviskinpiedmpydengtpvdivlnplgvpsrmnigqilethlgmaakgigdkinamlkqqqevaklrefiqraydlgadvrqkvdlstfsdeevmrlaenlrkgmpiatpvfdgakeaeikellklgdlptsgqirlydgrtgeqferpvtvgymymlklnhlvddkmharstgsyslvtqqplggkaqfggqrfgemevwaleaygaaytlqemltvksddvngrtkmyknivdgnhqmepgmpesfnvllkeirslginielede > 6xh8_D interface=305,306,412,413,776,777, eefdaikialaspdmirswsfgevkkpetinyrtfkperdglfcarifgpvkdyeclcgkykrlkhrgvicekcgvevtqtkvrrermghielasptahiwflkslpsrigllldmplrdiervlyfesyvvieggmtnlerqqilteeqyldaleefgdefdakmgaeaiqallksmdleqeceqlreelnetnsetkrkkltkriklleafvqsgnkpewmiltvlpvlppdlrplvpldggrfatsdlndlyrrvinrnnrlkrlldlaapdiivrnekrmlqeavdalldngrrgraitgSNkrplksladmikgkqgrfrqnllgkrvdysgrsvitvgpylrlhqcglpkkmalelfkpfiygklelrglattikaakkmvereeavvwdildevirehpvllnrAPtlhrlgiqafepvliegkaiqlhplvcaaynadfdgdqmavhvpltleaqlearalmmstnnilspangepiivpsqdvvlglyymtrdcvnakgegmvltgpkeaerlyrsglaslharvkvriteyekdangelvaktslkdttvgrailwmivpkglpysivnqalgkkaiskmlntcyrilglkptvifadqimytgfayaarsgasvgiddmvipekkheiiseaeaevaeiqeqfqsglvtagerynkvidiwaaandrvskammdnlqtetvinrdgqeekqvsfnsiymmadsgargsaaqirqlagmrglmakpdgsiietpitanfreglnvlqyfisthgarkgladtalkTAnsgyltrrlvdvaqdlvvteddcgthegimmtpvieggdvkeplrdrvlgrvtaedvlkpgtadilvprntllheqwcdlleensvdavkvrsvvscdtdfgvcahcygrdlarghiinkgeaigviaaqsigepgtqltmssiqvknkgsiklsnvksvvnssgklvitsrntelklidefgrtkesykvpygavlakgdgeqvaggetvanwdphtmpvitevsgfvrftdmidgqtitrqtdeltglsslvvldsaertaggkdlrpalkivdaqgndvlipgtdmpaqyflpgkaivqledgvqissgdtlaripqglprvadlfearrpkepailaeisgivsfgketkgkrrlvitpvdgsdpyeemipkwrqlnvfegervergdvisdgpeaphdilrlrgvhavtryivnevqdvyrlqgvkindkhievivrqmlrkativnagssdflegeqveysrvkianreleangkvgatysrdllgitkaslatesfisaasfqettrvlteaavagkrdelrglkenvivgrlipagtgyayhqdrmrrraag > 6xh8_F interface=20,21,24,32,34,267,269,270,276,278,303,304,307,309,312,313,314,317,321,327,339,348,386,389,395,397,400,467,468,469,470,472, aaaqvlssveseigrttdpVRmyMremgtveLlTregeidiakriedginqvqcsvaeypeaitylleqydrveaeearlsdlitgfvdpnaensidpelarekfaelraqyvvtrdtikakgrshataqeeilklsevfkqfrlvpkqfdylvnsmrvmmdrvrtqerlimklcveqckmpkknfitlftgnetsdtwfnaaiamnkpwseklhdvseevhralqklqqieeetgltieqvkdinrrmsigeakarrakkemveaNlRLvisiaKkYtnrglqfldliqegniglmkavdkFEyrRgYkfSTYatWwirQaitrsIadqartiripvHmietinklNrisrqmlqemgreptpeelaermlmpedkirkvlkiaKepIsmetpIgDdeDshlgdfiedttlelpldsatteslraathdvlagltareakvlrmrfgidmntdytleevgkqfdvTRERiRqieakalrklrhpsrsevlrsfldd > 6xh8_G interface=15,19, mnisdvakitgltsKairFyeekglvtppmrsengyrtytqqhlneltllrqarqvgfnleesgelvnlfndpqrhsadvkrrtlekvaeierhieelqsmrdqllalanacpgddsadcpiienlsgcc > 6xh8_H interface=15,18,19,36, mnisdvakitgltsKaiRFyeekglvtppmrsengYrtytqqhlneltllrqarqvgfnleesgelvnlfndpqrhsadvkrrtlekvaeierhieelqsmrdqllalanacpgddsadcpiienlsgcc