8y6u_CDFHIJ : 3D-footprint complex

Interface of input file ?

structure name	CRYO-EM STRUCTURE OF E.COLI TRANSCRIPTION INITIATION COMPLEX WITH TRANSCRIPTION FACTOR GCVA
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;
reference complex	3iyd_A 6psq_M 7c97_K 8y6u_I
links to other resources	NAKB PDIdb DNAproDB
protein sequence	> 8y6u_C interface=173,181,183,197,198,199,365,369,372,468,471,506,540, ysytekkrirkdfgkrpqvldvpyllsiqldsfqkfieqdpegqygleaafrsvfpiqsysgnselqyvsyrlgepvfdvqecqirgvtysaplrvklrlviyereapegtvkdikeqevymgeiplmtdngtfvingtervivsqlhrspgvffdsdkgkthssgkvlynaRiipyrgsWlDfefdpkdnlfvriDRRrklpatiilralnytteqildlffekvifeirdnklqmelvperlrgetasfdieangkvyvekgrritarhirqlekddvklievpveyiagkvvakdyidestgelicaanmelsldllaklsqsghkrietlftndldhgpyisetlrvdptndrlsalveiYrmmRpgEpptreaaeslfenlffsedrydlsavgrmkfnrsllreeiegsgilskddiidvmkklidirngkgevddidhlgnrrirsvgemaenqfrvglvRveRavkerlslgdldtlmpqdminakpisaavkeffgSsqlsqfmvqnnplseithkrrisalgpggltreRagfevrdvhpthygrvcpietpegpniglinslsvyaqtneygfletpyrkvtdgvvtdeihylsaieegnyviaqansnldeeghfvedlvtcrskgesslfsrdqvdymdvstqqvvsvgaslipflehddanralmganmqrqavptlradkplvgtgmeravavdsgvtavakrggvvqyvdasrivikvnedemypgeagidiynltkytrsnqntcinqmpcvslgepvergdvladgpstdlgelalgqnmrvafmpwngynfedsilvservvqedrfttihiqelacvsrdtklgpeeitadipnvgeaalskldesgivyigaevtggdilvgkvtpkgetqltpeekllraifgekasdvkdsslrvpngvsgtvidvqvftrdgvekdkraleieemqlkqakkdlseelqileaglfsriravlvaggveaekldklprdrwlelgltdeekqnqleqlaeqydelkhefekkleakrrkitqgddlapgvlkivkvylavkrriqpgdkmagrhgnkgviskinpiedmpydengtpvdivlnplgvpsrmnigqilethlgmaakgigdkinamlkqqqevaklrefiqraydlgadvrqkvdlstfsdeevmrlaenlrkgmpiatpvfdgakeaeikellklgdlptsgqirlydgrtgeqferpvtvgymymlklnhlvddkmharstgsyslvtqqplggkaqfggqrfgemevwaleaygaaytlqemltvksddvngrtkmyknivdgnhqmepgmpesfnvllkeirslginielede > 8y6u_D interface=299,304,305,337,410,774,775, eefdaikialaspdmirswsfgevkkpetinyrtfkperdglfcarifgpvkdyeclcgkykrlkhrgvicekcgvevtqtkvrrermghielasptahiwflkslsrigllldmplrdiervlyfesyvvieggmtnlerqqilteeqyldaleefgdefdakmgaeaiqallksmdleqeceqlreelnetnsetkrkkltkriklleafvqsgnkpewmiltvlpvlppdlrplvpldggrfatsdlndlyrrvinrnnrlkrlldlaapdiivrnekrmlqeavdalldngrrgRaitgSNkrplksladmikgkqgrfrqnllgkrvdysgRsvitvgylrlhqcglpkkmalelfkpfiygklelrglattikaakkmvereeavvwdildevirehpvllnrAptlhrlgiqafepvliegkaiqlhplvcaaynadfdgdqmavhvpltleaqlearalmmstnnilspangepiivpsqdvvlglyymtrdcvnakgegmvltgpkeaerlyrsglaslharvkvriteyekdangelvaktslkdttvgrailwmivpkglpysivnqalgkkaiskmlntcyrilglkptvifadqimytgfayaarsgasvgiddmvipekkheiiseaeaevaeiqeqfqsglvtagerynkvidiwaaandrvskammdnlqtetvinrdgqeekqvsfnsiymmadsgargsaaqirqlagmrglmakpdgsiietpitanfreglnvlqyfisthgarkgladtalkTAnsgyltrrlvdvaqdlvvteddcgthegimmtpvieggdvkeplrdrvlgrvtaedvlkpgtadilvprntllheqwcdlleensvdavkvrsvvscdtdfgvcahcygrdlarghiinkgeaigviaaqsigepgtqltmssiqvknkgsiklsnvksvvnssgklvitsrntelklidefgrtkesykvpygavlakgdgeqvaggetvanwdphtmpvitevsgfvrftdmidgqtitrqtdeltglsslvvldsaertaggkdlrpalkivdaqgndvlipgtdmpaqyflpgkaivqledgvqissgdtlaripqglprvadlfearrpkepailaeisgivsfgketkgkrrlvitpvdgspyeemipkwrqlnvfegervergdvisdgpeaphdilrlrgvhavtryivnevqdvyrlqgvkindkhievivrqmlrkativnagssdflegeqveysrvkianreleangkvgatysrdllgitkaslatesfisaasfqettrvlteaavagkrdelrglkenvivgrlipagtgyayhqdrmrrraag > 8y6u_F interface=18,20,21,24,32,267,269,270,276,278,280,302,303,306,308,311,312,313,315,316,317,319,320,326,337,341,344,347,386,388,392,393,394,399,405,456,467,468,469,471, aaaqvlssveseigrttDpVRmyMremgtveLltregeidiakriedginqvqcsvaeypeaitylleqydrveaeearlsdlitgfvdpnaensidpelarekfaelraqyvvtrdtikakgrshataqeeilklsevfkqfrlvpkqfdylvnsmrvmmdrvrtqerlimklcveqckmpkknfitlftgnetsdtwfnaaiamnkpwseklhdvseevhralqklqqieeetgltieqvkdinrrmsigeakarrakkemveaNlRLvisiaKkYtRglqfldliqegniglmkavdkFEyrRgYkfSTYaTWWiRQaitrsIadqartiripVhmiEtiNklNrisrqmlqemgreptpeelaermlmpedkirkvlkiakEpIsmeTPIgddeDshlgdFiedttlelpldsatteslraathdvlagltareakvlrmrfgidmntdytLeevgkqfdvtRERiRqieakalrklrhpsrsevlrsfldd > 8y6u_H interface=33,35,36,38,39,57, mskrlpplnalrvfdaaarhlsftraaeelfvTqAAvSHqiksledflglklfrrrNrslllteegqsyfldikeifsqlteatrklqarsa > 8y6u_I interface=16, dpillrpvddleltvRsanclkaeaihyigdlvqrtevellktpnslteikdvlasrglslgmrlenwppa > 8y6u_J interface=19,31,34, pplnalrvfdaaarhlsfTraaeelfvtqaAvsHqiksledflglklfrrrnrslllteegqsyfldikeifsqlteatrklq
interface signature	RWDDRRYRERRSR/RSNRATA/DVRMLNRLKYRFERYSTYTWWRQIVENNEITPIDFLRERR/TAASHN/R/TAH

Estimated binding specificities ?

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# IC=35.439 IC/col=0.611 n_of_columns=58

specificity:

A |   0  96   0   0   5  15  96   0   0   0   0  96  96  24  96  96   0  24  24  24  24  24  24  24  24  24  24  24  24  24  24  24  24  24  24   5  96  96   0  24  24  96   5  96  93  24  24  24  24   0  96  96   5  24  24  24   5   5
C |   0   0   0   0  81  14   0   0   0   0   0   0   0  24   0   0   0  24  24  24  24  24  24  24  24  24  24  24  24  24  24  24  24  24  24   5   0   0  94  24  24   0  87   0   0  24  24  24  24   0   0   0   5  24  24  24   5  79
G |  96   0  96   0   5  53   0  96  96  96   0   0   0  24   0   0  96  24  24  24  24  24  24  24  24  24  24  24  24  24  24  24  24  24  24   5   0   0   2  24  24   0   2   0   1  24  24  24  24   0   0   0   5  24  24  24   2   5
T |   0   0   0  96   5  14   0   0   0   0  96   0   0  24   0   0   0  24  24  24  24  24  24  24  24  24  24  24  24  24  24  24  24  24  24  81   0   0   0  24  24   0   2   0   2  24  24  24  24  96   0   0  81  24  24  24  84   7

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updated Thu Jan 8 16:42:02 2026