eF-site ID 6bqf-ABCEFHIJKL PDB Code 6bqf Chain A, B, C, E, F, H, I, J, K, L Title Pol II elongation complex with 'dT-AP' at i+1, i-1 position Classification TRANSFERASE/TRANSCRIPTION Compound DNA-directed RNA polymerase II subunit RPB1 Source (6BQF) Sequence A:  GQQYSSAPLRTVKEVQFGLFSPEEVRAISVAKIRFPETMD ETQTRAKIGGLNDPRLGSIDRNLKCQTCQEGMNECPGHFG HIDLAKPVFHVGFIAKIKKVCECVCMHCGKLLLDEHNELM RQALAIKDSKKRFAAIWTLCKTKMVCGGCGNTQPTIRKDG LKLVGSWVLSTEEILNIFKHISVKDFTSLGFNEVFSRPEW MILTCLPVPPPPVRPSIEDDLTFKLADILKANISLETLEH NGAPHHAIEEAESLLQFHVATYMDNDIAGQPQALQKSGRP VKSIRARLKGKEGRIRGNLMGKRVDFSARTVISGDPNLEL DQVGVPKSIAKTLTYPEVVTPYNIDRLTQLVRNGPNEHPG AKYVIRDSGDRIDLRYSKRAGDIQLQYGWKVERHIMDNDP VLFNRQPSLHKMSMMAHRVKVIPYSTFRLNLSVTSPYNAD FDGDEMNLHVPQSEETRAELSQLCAVPLQIVSPQSNKPCM GIVQDTLCGIRKLTLRDTFIELDQVLNMLYWVPDWDGVIP TPAIIKPKPLWSGKQILSVAIPNGIHLQRFDEGTTLLSPK DNGMLIIDGQIIFGVVEKKTVGSSNGGLIHVVTREKGPQV CAKLFGNIQKVVNFWLLHNGFSTGIGDTIADGPTMREITE TIAEAKKKVLDVTKEAQANLLTAKHGMTLRESFEDNVVRF LNEARDKAGRLAEVNLKDLNNVKQMVMAGSKGSFINIAQM SACVGQQSVEGKRIAFGFVDRTLPHFSKDDYSPESKGFVE NSYLRGLTPQEFFFHAMGGREGLIDTAVKTAETGYIQRRL VKALEDIMVHYDNTTRNSLGNVIQFIYGEDGMDAAHIEKQ SLDTIGGSDAAFEKRYRVDLLNTDHTLDPSLLESGSEILG DLKLQVLLDEEYKQLVKDRKFLREVFVDGEANWPLPVNIR RIIQNAQQTFHIDHTKPSDLTIKDIVLGVKDLQENLLVLR GKNEIIQNAQRDAVTLFCCLLRSRLATRRVLQEYRLTKQA FDWVLSNIEAQFLRSVVHPGEMVGVLAAQSIGEPATQMTK VTSGVPRLKEILNVAKNMKTPSLTVYLEPGHAADQEQAKL IRSAIEHTTLKSVTIASEIYYDPDPRSTVIPEDEEIIQLH FSQQSPWLLRLELDRAAMNDKDLTMGQVGERIKQTFKNDL FVIWSEDNDEKLIIRCRVVAEEDHMLKKIENTMLENITLR GVENIERVVMMKYDRKVPSPTGEYVKEPEWVLETDGVNLS EVMTVPGIDPTRIYTNSFIDIMEVLGIEAGRAALYKEVYN VIASDGSYVNYRHMALLVDVMTTQGGLTSVTRHGFNRSNT GALMRCSFEETVEILFEAGASAELDDCRGVSENVILGQMA PIGTGAFDVMID B:  DESAPITAEDSWAVISAFFREKGLVSQQLDSFNQFVDYTL QDIICEDSTLIEISFGKIYVTKPMVNESDGVTHALYPQEA RLRNLTYSSGLFVDVKKKVFIGRLPIMLRSKNCYLSEATE SDLYKLKECPFDMGGYFIINGSEKVLIAQERSAGNIVQVF KKAAPSPISHVAEIRSAISTLQVKLYGREGSSARTIKATL PYIKQDIPIVIIFRALGIIPDGEILEHICYDVNDWQMLEM LKPCVEDGFVIQDRETALDFIGRRGKEKRIQYAKDILQKE FLPHITQLEGFESRKAFFLGYMINRLLLCALDRKDQDDRD HFGKKRLDLAGPLLAQLFKTLFKKLTKDIFRYMQRTLAIN AKTITSGLKYALATGNWGEQKKAMSSRAGVSQVLNRYTYS STLSHLRRTNTPIAKPRQLHNTHWGLVCPAETPEGQACGL VKNLSLMSCISVGTDPMPIITFLSEWGMEPLEDYVPHQSP DATRVFVNGVWHGVHRNPARLMETLRTLRRKGDINPEVSM IRDIREKELKIFTDAGRVYRPLFIVEDDESLGHKELKVRK GHIAKLMATEYQDEYTWSSLLNEGLVEYIDAEEEESILIA MQPEDLEPDVDPAKRIRVSHHATTFTHCEIHPSMILGVAA SIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNYNVRMDTMA NILYYPQKPLGTTRAMEYLKFRELPAGQNAIVAIACYSGY NQEDSMIMNQSSIDRGLFRSLFFRSYMDQEKKYGMSITET FEKPQRTNTLRMKHGTYDKLDDDGLIAPGVRVSGEDVIIG KTTPITAYHSKRDASTPLRSTENGIVDQVLVTTNQDGLKF VKVRVRTTKIPQIGDKFASRHGQKGTIGITYRREDMPFTA EGIVPDLIINPHAIPSRMTVAHLIECLLSKVAALSGNEGD ASPFTDITVEGISKLLREHGYQSRGFEVMYNGHTGKKLMA QIFFGPTYYQRLRHMVDDKIHARARGPMQVLTRQPVEGRS RDGGLRFGEMERDCMIAHGAASFLKERLMEASDAFRVHIC GICGLMTVIAKLNHNQFECKGCDNKIDIYQIHIPYAAKLL FQELMAMNITPRLYTDR C:  EEGPQVKIREASKDNVDFILSNVDLAMANSLRRVMIAEIP TLAIDSVEVETNTTVLADEFIAHRLGLIPLQSMDIEQLEY SRDCFCEDHCDKCSVVLTLQAFGESESTTNVYSKDLVIVS NLMGRNIGHPIIQDKEGNGVLICKLRKGQELKLTCVAKKG IAKEHAKWGPAAAIEFEYDPWNKLKHTDYWYEQDSAKEWP QSKNCEYEDPPNEGDPFDYKAQADTFYMNVESVGSIPVDQ VVVRGIDTLQKKVASILLALTQMDQD E:  QENERNISRLWRAFRTVKEMVKDRGYFITQEEVELPLEDF KAKYCDSMGRPQRKMMSFQANPTEESISKFPDMGSLWVEF CDEPSVGVKTMKTFVIHIQEKNFQTGIFVYQNNITPSAMK LVPSIPPATIETFNEAALVVNITHHELVPKHIRLSSDEKR ELLKRYRLKESQLPRIQRADPVALYLGLKRGEVVKIIRKS ETSGRYASYRICM F:  KAIPKDQRATTPYMTKYERARILGTRALQISMNAPVFVDL EGETDPLRIAMKELAEKKIPLVIRRYLPDGSFEDWSVEEL IVDL H:  NTLFDDIFQVSEVDPGRYNKVCRIEAASTTQDQCKLTLDI NVELFPVAAQDSLTVTIASSLTRSWRPPQAGDRSLADDYD YVMYGTAYKFEEVSKDLIAVYYSFGGLLMRLEGNYLNNLK QENAYLLIRR I:  TTFRFCRDCNNMLYPREDKENNRLLFECRTCSYVEEAGSP LVYRHELITNIGETAGVVQDIGSDPTLPRSDRECPKCHSR ENVFFQSQQRRKDTSMVLFFVCLSCSHIFTSDQKN J:  MIVPVRCFSCGKVVGDKWESYLNLLQEDELDEGTALSRLG LKRYCCRRMILTHVDLIEKFLRYNP K:  MNAPDRFELFLLGEGESKLKIDPDTKAPNAVVITFEKEDH TLGNLIRAELLNDRKVLFAAYKVEHPFFARFKLRIQTTEG YDPKDALKNACNSIINKLGALKTNFETEWNLQTL L:  LKYICAECSSKLSLSRTDAVRCKDCGHRILLKARTKRLVQ FEAR Description Functional site 1) chain A residue 107 type sequence C description binding site for residue ZN A 1801 source : AC1 2) chain A residue 108 type sequence M description binding site for residue ZN A 1801 source : AC1 3) chain A residue 110 type sequence C description binding site for residue ZN A 1801 source : AC1 4) chain A residue 148 type sequence C description binding site for residue ZN A 1801 source : AC1 5) chain A residue 167 type sequence C description binding site for residue ZN A 1801 source : AC1 6) chain A residue 67 type sequence C description binding site for residue ZN A 1802 source : AC2 7) chain A residue 70 type sequence C description binding site for residue ZN A 1802 source : AC2 8) chain A residue 77 type sequence C description binding site for residue ZN A 1802 source : AC2 9) chain A residue 80 type sequence H description binding site for residue ZN A 1802 source : AC2 10) chain A residue 481 type sequence D description binding site for residue MG A 1803 source : AC3 11) chain A residue 483 type sequence D description binding site for residue MG A 1803 source : AC3 12) chain A residue 485 type sequence D description binding site for residue MG A 1803 source : AC3 13) chain B residue 1163 type sequence C description binding site for residue ZN B 1301 source : AC4 14) chain B residue 1166 type sequence C description binding site for residue ZN B 1301 source : AC4 15) chain B residue 1182 type sequence C description binding site for residue ZN B 1301 source : AC4 16) chain B residue 1185 type sequence C description binding site for residue ZN B 1301 source : AC4 17) chain C residue 86 type sequence C description binding site for residue ZN C 401 source : AC5 18) chain C residue 88 type sequence C description binding site for residue ZN C 401 source : AC5 19) chain C residue 92 type sequence C description binding site for residue ZN C 401 source : AC5 20) chain C residue 95 type sequence C description binding site for residue ZN C 401 source : AC5 21) chain I residue 7 type sequence C description binding site for residue ZN I 201 source : AC6 22) chain I residue 10 type sequence C description binding site for residue ZN I 201 source : AC6 23) chain I residue 29 type sequence C description binding site for residue ZN I 201 source : AC6 24) chain I residue 32 type sequence C description binding site for residue ZN I 201 source : AC6 25) chain I residue 75 type sequence C description binding site for residue ZN I 202 source : AC7 26) chain I residue 78 type sequence C description binding site for residue ZN I 202 source : AC7 27) chain I residue 103 type sequence C description binding site for residue ZN I 202 source : AC7 28) chain I residue 106 type sequence C description binding site for residue ZN I 202 source : AC7 29) chain J residue 7 type sequence C description binding site for residue ZN J 101 source : AC8 30) chain J residue 10 type sequence C description binding site for residue ZN J 101 source : AC8 31) chain J residue 45 type sequence C description binding site for residue ZN J 101 source : AC8 32) chain J residue 46 type sequence C description binding site for residue ZN J 101 source : AC8 33) chain L residue 31 type sequence C description binding site for residue ZN L 101 source : AC9 34) chain L residue 34 type sequence C description binding site for residue ZN L 101 source : AC9 35) chain L residue 48 type sequence C description binding site for residue ZN L 101 source : AC9 36) chain L residue 51 type sequence C description binding site for residue ZN L 101 source : AC9 37) chain L residue 31-51 type ZN_FING sequence CAECSSKLSLSRTDAVRCKDC description C4-type source Swiss-Prot : SWS_FT_FI1 38) chain A residue 483 type ZN_FING sequence D description C4-type source Swiss-Prot : SWS_FT_FI1 39) chain A residue 485 type ZN_FING sequence D description C4-type source Swiss-Prot : SWS_FT_FI1 40) chain J residue 10 type ZN_FING sequence C description C4-type source Swiss-Prot : SWS_FT_FI1 41) chain J residue 45 type ZN_FING sequence C description C4-type source Swiss-Prot : SWS_FT_FI1 42) chain J residue 46 type ZN_FING sequence C description C4-type source Swiss-Prot : SWS_FT_FI1 43) chain A residue 107 type ZN_FING sequence C description C4-type source Swiss-Prot : SWS_FT_FI1 44) chain A residue 110 type ZN_FING sequence C description C4-type source Swiss-Prot : SWS_FT_FI1 45) chain A residue 148 type ZN_FING sequence C description C4-type source Swiss-Prot : SWS_FT_FI1 46) chain A residue 167 type ZN_FING sequence C description C4-type source Swiss-Prot : SWS_FT_FI1 47) chain A residue 481 type ZN_FING sequence D description C4-type source Swiss-Prot : SWS_FT_FI1 48) chain I residue 40 type MOD_RES sequence S description Phosphoserine => ECO:0007744|PubMed:18407956 source Swiss-Prot : SWS_FT_FI5 49) chain L residue 31 type BINDING sequence C description source Swiss-Prot : SWS_FT_FI2 50) chain L residue 34 type BINDING sequence C description source Swiss-Prot : SWS_FT_FI2 51) chain L residue 48 type BINDING sequence C description source Swiss-Prot : SWS_FT_FI2 52) chain L residue 51 type BINDING sequence C description source Swiss-Prot : SWS_FT_FI2 53) chain B residue 1185 type BINDING sequence C description source Swiss-Prot : SWS_FT_FI2 54) chain I residue 7 type BINDING sequence C description BINDING => ECO:0000269|PubMed:11313498, ECO:0000269|PubMed:11805306, ECO:0000269|PubMed:15537538, ECO:0000305|PubMed:11313499 source Swiss-Prot : SWS_FT_FI3 55) chain I residue 10 type BINDING sequence C description BINDING => ECO:0000269|PubMed:11313498, ECO:0000269|PubMed:11805306, ECO:0000269|PubMed:15537538, ECO:0000305|PubMed:11313499 source Swiss-Prot : SWS_FT_FI3 56) chain I residue 29 type BINDING sequence C description BINDING => ECO:0000269|PubMed:11313498, ECO:0000269|PubMed:11805306, ECO:0000269|PubMed:15537538, ECO:0000305|PubMed:11313499 source Swiss-Prot : SWS_FT_FI3 57) chain I residue 32 type BINDING sequence C description BINDING => ECO:0000269|PubMed:11313498, ECO:0000269|PubMed:11805306, ECO:0000269|PubMed:15537538, ECO:0000305|PubMed:11313499 source Swiss-Prot : SWS_FT_FI3 58) chain B residue 837 type catalytic sequence D description 788 source MCSA : MCSA1 59) chain A residue 483 type catalytic sequence D description 788 source MCSA : MCSA1 60) chain A residue 485 type catalytic sequence D description 788 source MCSA : MCSA1 61) chain I residue 75 type BINDING sequence C description BINDING => ECO:0000255|PROSITE-ProRule:PRU00472, ECO:0000269|PubMed:11313498, ECO:0000269|PubMed:11805306, ECO:0000269|PubMed:15537538, ECO:0000305|PubMed:11313499 source Swiss-Prot : SWS_FT_FI4 62) chain I residue 78 type BINDING sequence C description BINDING => ECO:0000255|PROSITE-ProRule:PRU00472, ECO:0000269|PubMed:11313498, ECO:0000269|PubMed:11805306, ECO:0000269|PubMed:15537538, ECO:0000305|PubMed:11313499 source Swiss-Prot : SWS_FT_FI4 63) chain I residue 103 type BINDING sequence C description BINDING => ECO:0000255|PROSITE-ProRule:PRU00472, ECO:0000269|PubMed:11313498, ECO:0000269|PubMed:11805306, ECO:0000269|PubMed:15537538, ECO:0000305|PubMed:11313499 source Swiss-Prot : SWS_FT_FI4 64) chain I residue 106 type BINDING sequence C description BINDING => ECO:0000255|PROSITE-ProRule:PRU00472, ECO:0000269|PubMed:11313498, ECO:0000269|PubMed:11805306, ECO:0000269|PubMed:15537538, ECO:0000305|PubMed:11313499 source Swiss-Prot : SWS_FT_FI4 65) chain J residue 2-11 type prosite sequence IVPVRCFSCG description RNA_POL_N_8KD RNA polymerases N / 8 Kd subunits signature. IVPVrCFSCG source prosite : PS01112 66) chain F residue 86-100 type prosite sequence TKYERARILGTRALQ description RNA_POL_K_14KD RNA polymerases K / 14 to 18 Kd subunits signature. TkYErARiLGtRAlQ source prosite : PS01111 67) chain I residue 75-110 type prosite sequence CPKCHSRENVFFQSQQRRKDTSMVLFFVCLSCSHIF description ZF_TFIIS_1 Zinc finger TFIIS-type signature. CpkChsrenvffqSQQRRkDTSmvlffvCls...CshiF source prosite : PS00466 68) chain I residue 6-32 type prosite sequence FCRDCNNMLYPREDKENNRLLFECRTC description RNA_POL_M_15KD RNA polymerases M / 15 Kd subunits signature. FCrDCNNMLypredkennrllfeCrtC source prosite : PS01030 69) chain C residue 31-71 type prosite sequence NSLRRVMIAEIPTLAIDSVEVETNTTVLADEFIAHRLGLI P description RNA_POL_D_30KD RNA polymerases D / 30 to 40 Kd subunits signature. NSLRRvmiaeiptlAidsVevetNtTvlaDEfIAhRLGLIP source prosite : PS00446 70) chain E residue 147-160 type prosite sequence HELVPKHIRLSSDE description RNA_POL_H_23KD RNA polymerases H / 23 Kd subunits signature. HELVPKHirLssDE source prosite : PS01110 71) chain K residue 35-66 type prosite sequence FEKEDHTLGNLIRAELLNDRKVLFAAYKVEHP description RNA_POL_L_13KD RNA polymerases L / 13 to 16 Kd subunits signature. FekEdHTLgNlIraeLlndrkVlfaaYkveHP source prosite : PS01154 72) chain B residue 977-989 type prosite sequence GDKFASRHGQKGT description RNA_POL_BETA RNA polymerases beta chain signature. GdKFASrHGQKGT source prosite : PS01166

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