eF-site ID 6n62-ABCDEFNT PDB Code 6n62 Chain A, B, C, D, E, F, N, T Title Escherichia coli RNA polymerase sigma70-holoenzyme bound to upstream fork promoter DNA Classification TRANSFERASE/DNA Compound DNA-directed RNA polymerase subunit alpha Source (6N62) Sequence A:  FLKPRLVDIEQVSSTHAKVTLEPLERGFGHTLGNALRRIL LSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNLKG LAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVKPQ HVICHLTDENASISMRIKVQRGRGYVPASTRIHSEEDERP IGRLLVDACYSPVERIAYNVEAARVEQRTDLDKLVIEMET NGTIDPEEAIRRAATILAEQLEAFVDLE B:  TEFLKPRLVDIEQVSSTHAKVTLEPLERGFGHTLGNALRR ILLSSMPGCAVTEVEIDGVLHEYSTKEGVQEDILEILLNL KGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEIVK PQHVICHLTDENASISMRIKVQRGRGYVPASTRLLVDACY SPVERIAYNVEAARVEQRTDLDKLVIEMETNGTIDPEEAI RRAATILAEQLEAFVDL C:  YSYTEKKRIRKDFGKRPQVLDVPYLLSIQLDSFQKFIEQD PEGQYGLEAAFRSVFPIQSYSGNSELQYVSYRLGEPVFDV QECQIRGVTYSAPLRVKLRLVIYEREGTVKDIKEQEVYMG EIPLMTDNGTFVINGTERVIVSQLHRSPGVFFDSDKGKTH SSGKVLYNARIIPYRGSWLDFEFDPKDNLFVRIDRRRKLP ATIILRALNYTTEQILDLFFEKVIFEIRDNKLQMELVPER LRGETASFDIEANGKVYVEKGRRITARHIRQLEKDDVKLI EVPVEYIAGKVVAKDYIDESTGELICAANMELSLDLLAKL SQSGHKRIETLFTNDLDHGPYISETLRVDPTNDRLSALVE IYRMMRPGEPPTREAAESLFENLFFSEDRYDLSAVGRMKF NRSLLREEIEGSGILSKDDIIDVMKKLIDIRNGKGEVDDI DHLGNRRIRSVGEMAENQFRVGLVRVERAVKERLSLGDLD TLMPQDMINAKPISAAVKEFFGSSQLSQFMDQNNPLSEIT HKRRISALGPGGLTRERAGFEVRDVHPTHYGRVCPIETPE GPNIGLINSLSVYAQTNEYGFLETPYRKVTDGVVTDEIHY LSAIEEGNYVIAQANSNLDEEGHFVEDLVTCRSKGESSLF SRDQVDYMDVSTQQVVSVGASLIPFLEHDDANRALMGANM QRQAVPTLRADKPLVGTGMERAVAVDSGVTAVAKRGGVVQ YVDASRIVIKVNEDEMYPGEAGIDIYNLTKYTRSNQNTCI NQMPCVSLGEPVERGDVLADGPSTDLGELALGQNMRVAFM PWNGYNFEDSILVSERVVQEDRFTTIHIQELACVSRDTKL GPEEITADIPNVGEAALSKLDESGIVYIGAEVTGGDILVG KVTPKGETQLTPEEKLLRAIFGEKASDVKDSSLRVPNGVS GTVIDVQVFTRDGVEKDKRALEIEEMQLKQAKKDLSEELQ ILEAGLFSRIRAVLVAGGVEAEKLDKLPRDRWLELGLTDE EKQNQLEQLAEQYDELKHEFEKKLEAKRRKITQGDDLAPG VLKIVKVYLAVKRRIQPGDKMAGRHGNKGVISKINPIEDM PYDENGTPVDIVLNPLGVPSRMNIGQILETHLGMAAKGIG DKINAMLKQQQEVAKLREFIQRAYDLGADVRQKVDLSTFS DEEVMRLAENLRKGMPIATPVFDGAKEAEIKELLKLGDLP TSGQIRLYDGRTGEQFERPVTVGYMYMLKLNHLVDDKMHA RSTGSYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAY TLQEMLTVKSDDVNGRTKMYKNIVDGNHQMEPGMPESFNV LLKEIRSLGINIELEDE D:  EFDAIKIALASPDMIRSWSFGEVKKPETINYRTFKPERDG LFCARIFGPVKDYECLCGKYKRLKHRGVICEKCGVEVTQT KVRRERMGHIELASPTAHIWFLKSLPSRIGLLLDMPLRDI ERVLYFESYVVIEGGMTNLERQQILTEEQYLDALEEFGDE FDAKMGAEAIQALLKSMDLEQECEQLREELNETNSETKRK KLTKRIKLLEAFVQSGNKPEWMILTVLPVLPPDLRPLVPL DGGRFATSDLNDLYRRVINRNNRLKRLLDLAAPDIIVRNE KRMLQEAVDALLDNGRRGRAITGSNKRPLKSLADMIKGKQ GRFRQNLLGKRVDYSGRSVITVGPYLRLHQCGLPKKMALE LFKPFIYGKLELRGLATTIKAAKKMVEREEAVVWDILDEV IREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCA AYNADFDGDQMAVHVPLTLEAQLEARALMMSTNNILSPAN GEPIIVPSQDVVLGLYYMTRDCVNAKGEGMVLTGPKEAER LYRSGLASLHARVKVRITEYEKDANGELVAKTSLKDTTVG RAILWMIVPKGLPYSIVNQALGKKAISKMLNTCYRILGLK PTVIFADQIMYTGFAYAARSGASVGIDDMVIPEKKHEIIS EAEAEVAEIQEQFQSGLVTAGERYNKVIDIWAAANDRVSK AMMDNLQTETVINRDGQEEKQVSFNSIYMMADSGARGSAA QIRQLAGMRGLMAKPDGSIIETPITANFREGLNVLQYFIS THGARKGLADTALKTANSGYLTRRLVDVAQDLVVTEDDCG THEGIMMTPVIEGGDVKEPLRDRVLGRVTAEDVLKPGTAD ILVPRNTLLHEQWCDLLEENSVDAVKVRSVVSCDTDFGVC AHCYGRDLARGHIINKGEAIGVIAAQSIGEPGTQLTSSIQ VKNKGSIKLSNVKSVVNSSGKLVITSRNTELKLIDEFGRT KESYKVPYGAVLAKGDGEQVAGGETVANWDPHGGLPRVAD LFEARRPKEPAILAEISGIVSFGKETKGKRRLVITPVDGS DPYEEMIPKWRQLNVFEGERVERGDVISDGPEAPHDILRL RGVHAVTRYIVNEVQDVYRLQGVKINDKHIEVIVRQMLRK ATIVNAGSSDVEYSRVKIANRELEANGKVGATYSRDLLGI TKASLATESFISAASFQETTRVLTEAAVAGKRDELRGLKE NVIVGRLIPAGTGYAYHQDRMRRRAA E:  ARVTVQDAVEKIGNRFDLVLVAARRARQMQVGGKDPLVPE ENDKTTVIALREIEEGLINNQILDVRERQEQQEQEAAEL F:  TTDPVRMYMREMGTVELLTREGEIDIAKRIEDGINQVQCS VAEYPEAITYLLEQYNRVEAEEARLSDLITGFVDIDPELA REKFAELRAQYVVTRDTIKHATAQEEILKLSEVFKQFRLV PKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNF ITLFTGNETSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQ KLQQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEA NLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYR RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK LNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAK EPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRA ATHDVLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDV TRERIRQIEAKALRKLRHPSRSEVLRSFLDD N:  GACCTTCCCCTGATGGGAAGGTTTATAAT T:  AAACCTTCCCATCAGGGGAAGGTC Description Functional site 1) chain D residue 460 type sequence D description binding site for residue MG D 1501 source : AC1 2) chain D residue 462 type sequence D description binding site for residue MG D 1501 source : AC1 3) chain D residue 464 type sequence D description binding site for residue MG D 1501 source : AC1 4) chain D residue 70 type sequence C description binding site for residue ZN D 1502 source : AC2 5) chain D residue 72 type sequence C description binding site for residue ZN D 1502 source : AC2 6) chain D residue 85 type sequence C description binding site for residue ZN D 1502 source : AC2 7) chain D residue 87 type sequence K description binding site for residue ZN D 1502 source : AC2 8) chain D residue 88 type sequence C description binding site for residue ZN D 1502 source : AC2 9) chain D residue 814 type sequence C description binding site for residue ZN D 1503 source : AC3 10) chain D residue 888 type sequence C description binding site for residue ZN D 1503 source : AC3 11) chain D residue 895 type sequence C description binding site for residue ZN D 1503 source : AC3 12) chain D residue 898 type sequence C description binding site for residue ZN D 1503 source : AC3 13) chain D residue 983 type MOD_RES sequence K description N6-acetyllysine => ECO:0000255|HAMAP-Rule:MF_01322, ECO:0000269|PubMed:18723842 source Swiss-Prot : SWS_FT_FI3 14) chain F residue 562 type SITE sequence R description Interaction with anti-sigma factors source Swiss-Prot : SWS_FT_FI2 15) chain C residue 1063-1075 type prosite sequence GDKMAGRHGNKGV description RNA_POL_BETA RNA polymerases beta chain signature. GdKMAGrHGNKGV source prosite : PS01166 16) chain F residue 403-416 type prosite sequence DLIQEGNIGLMKAV description SIGMA70_1 Sigma-70 factors family signature 1. DLIQeGnIGLMkAV source prosite : PS00715 17) chain F residue 572-598 type prosite sequence TLEEVGKQFDVTRERIRQIEAKALRKL description SIGMA70_2 Sigma-70 factors family signature 2. TleEVGkqfdVTrerIrQIEakaLrkL source prosite : PS00716 18) chain D residue 85 type DNA_BIND sequence C description H-T-H motif => ECO:0000255|HAMAP-Rule:MF_00963 source Swiss-Prot : SWS_FT_FI1 19) chain D residue 88 type DNA_BIND sequence C description H-T-H motif => ECO:0000255|HAMAP-Rule:MF_00963 source Swiss-Prot : SWS_FT_FI1 20) chain D residue 895 type DNA_BIND sequence C description H-T-H motif => ECO:0000255|HAMAP-Rule:MF_00963 source Swiss-Prot : SWS_FT_FI1 21) chain D residue 898 type DNA_BIND sequence C description H-T-H motif => ECO:0000255|HAMAP-Rule:MF_00963 source Swiss-Prot : SWS_FT_FI1 22) chain D residue 460 type DNA_BIND sequence D description H-T-H motif => ECO:0000255|HAMAP-Rule:MF_00963 source Swiss-Prot : SWS_FT_FI1 23) chain D residue 462 type DNA_BIND sequence D description H-T-H motif => ECO:0000255|HAMAP-Rule:MF_00963 source Swiss-Prot : SWS_FT_FI1 24) chain D residue 464 type DNA_BIND sequence D description H-T-H motif => ECO:0000255|HAMAP-Rule:MF_00963 source Swiss-Prot : SWS_FT_FI1 25) chain D residue 814 type DNA_BIND sequence C description H-T-H motif => ECO:0000255|HAMAP-Rule:MF_00963 source Swiss-Prot : SWS_FT_FI1 26) chain D residue 888 type DNA_BIND sequence C description H-T-H motif => ECO:0000255|HAMAP-Rule:MF_00963 source Swiss-Prot : SWS_FT_FI1 27) chain F residue 573-592 type DNA_BIND sequence LEEVGKQFDVTRERIRQIEA description H-T-H motif => ECO:0000255|HAMAP-Rule:MF_00963 source Swiss-Prot : SWS_FT_FI1 28) chain D residue 72 type DNA_BIND sequence C description H-T-H motif => ECO:0000255|HAMAP-Rule:MF_00963 source Swiss-Prot : SWS_FT_FI1

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