eF-site ID 1wcm-ABCDEFGHIJKL PDB Code 1wcm Chain A, B, C, D, E, F, G, H, I, J, K, L click to enlarge Title Complete 12-Subunit RNA Polymerase II at 3.8 Angstrom Classification TRANSCRIPTION Compound DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT Source ORGANISM_COMMON: YEAST; ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; Sequence A:  VGQQYSSAPLRTVKEVQFGLFSPEEVRAISVAKIRFPETM DETQTRAKIGGLNDPRLGSIDRNLKCQTCQEGMNECPGHF GHIDLAKPVFHVGFIAKIKKVCECVCMHCGKLLLDEHNEL MRQALAIKDSKKRFAAIWTLCKTKMVCETDVPSEDDPTQL VSRGGCGNTQPTIRKDGLKLVGSWKDEPELRVLSTEEILN IFKHISVKDFTSLGFNEVFSRPEWMILTCLPVPPPPVRPS ISFNESQRGEDDLTFKLADILKANISLETLEHNGAPHHAI EEAESLLQFHVATYMDNDIAGQPQALQKSGRPVKSIRARL KGKEGRIRGNLMGKRVDFSARTVISGDPNLELDQVGVPKS IAKTLTYPEVVTPYNIDRLTQLVRNGPNEHPGAKYVIRDS GDRIDLRYSKRAGDIQLQYGWKVERHIMDNDPVLFNRQPS LHKMSMMAHRVKVIPYSTFRLNLSVTSPYNADFDGDEMNL HVPQSEETRAELSQLCAVPLQIVSPQSNKPCMGIVQDTLC GIRKLTLRDTFIELDQVLNMLYWVPDWDGVIPTPAIIKPK PLWSGKQILSVAIPNGIHLQRFDEGTTLLSPKDNGMLIID GQIIFGVVEKKTVGSSNGGLIHVVTREKGPQVCAKLFGNI QKVVNFWLLHNGFSTGIGDTIADGPTMREITETIAEAKKK VLDVTKEAQANLLTAKHGMTLRESFEDNVVRFLNEARDKA GRLAEVNLKDLNNVKQMVMAGSKGSFINIAQMSACVGQQS VEGKRIAFGFVDRTLPHFSKDDYSPESKGFVENSYLRGLT PQEFFFHAMGGREGLIDTAVKTAETGYIQRRLVKALEDIM VHYDNTTRNSLGNVIQFIYGEDGMDAAHIEKQSLDTIGGS DAAFEKRYRVDLLNTDHTLDPSLLESGSEILGDLKLQVLL DEEYKQLVKDRKFLREVFVDGEANWPLPVNIRRIIQNAQQ TFHIDHTKPSDLTIKDIVLGVKDLQENLLVLRGKNEIIQN AQRDAVTLFCCLLRSRLATRRVLQEYRLTKQAFDWVLSNI EAQFLRSVVHPGEMVGVLAAQSIGEPATQMTLKKVTSGVP RLKEILNVAKNMKTPSLTVYLEPGHAADQEQAKLIRSAIE HTTLKSVTIASEIYYDPDPRSTVIPEDEEIIQLHFSLQQS PWLLRLELDRAAMNDKDLTMGQVGERIKQTFKNDLFVIWS EDNDEKLIIRCRVVAEEDHMLKKIENTMLENITLRGVENI ERVVMMKYDRKVPSPTGEYVKEPEWVLETDGVNLSEVMTV PGIDPTRIYTNSFIDIMEVLGIEAGRAALYKEVYNVIASD GSYVNYRHMALLVDVMTTQGGLTSVTRHGFNRSNTGALMR CSFEETVEILFEAGASAELDDCRGVSENVILGQMAPIGTG AFDVMIDEESLVKYMP B:  DESAPITAEDSWAVISAFFREKGLVSQQLDSFNQFVDYTL QDIICEDSTLIISFGKIYVTKPMVNESDGVTHALYPQEAR LRNLTYSSGLFVDVKKKVFIGRLPIMLRSKNCYLSEATES DLYKLKECPFDMGGYFIINGSEKVLIAQERSAGNIVQVFK KAAPSPISHVAEIRSALEKGSRFISTLQVKLYGREGSSAR TIKATLPYIKQDIPIVIIFRALGIIPDGEILEHICYDVND WQMLEMLKPCVEDGFVIQDRETALDFIGKEKRIQYAKDIL QKEFLPHITQLEGFESRKAFFLGYMINRLLLCALDRKDQD DRDHFGKKRLDLAGPLLAQLFKTLFKKLTKDIFRYMQRTV ELAINAKTITSGLKYALATGNWGAGVSQVLNRYTYSSTLS HLRRTNTPIAKPRQLHNTHWGLVCPAETPEGQACGLVKNL SLMSCISVGTDPMPIITFLSEWGMEPLEDYVPHQSPDATR VFVNGVWHGVHRNPARLMETLRTLRRKGDINPEVSMIRDI REKELKIFTDAGRVYRPLFIVEDDESLGHKELKVRKGHIA KLMATEYQDEYTWSSLLNEGLVEYIDAEEEESILIAMQPE DLEPAEADVDPAKRIRVSHHATTFTHCEIHPSMILGVAAS IIPFPDHNQSPRNTYQSAMGKQAMGVFLTNYNVRMDTMAN ILYYPQKPLGTTRAMEYLKFRELPAGQNAIVAIACYSGYN QEDSMIMNQSSIDRGLFRSLFFRSYMDQEKKYGMSITETF EKPQRTNTLRMKHGTYDKLDDDGLIAPGVRVSGEDVIIGK TTPISSKRDASTPLRSTENGIVDQVLVTTNQDGLKFVKVR VRTTKIPQIGDKFASRHGQKGTIGITYRREDMPFTAEGIV PDLIINPHAIPSRMTVAHLIECLLSKVAALSGNEGDASPF TDITVEGISKLLREHGYQSRGFEVMYNGHTGKKLMAQIFF GPTYYQRLRHMVDDKIHARARGPMQVLTRQPVEGRSRDGG LRFGEMERDCMIAHGAASFLKERLMEASDAFRVHICGICG LMTVIAKLNHNQFECKGCDNKIDIYQIHIPYAAKLLFQEL MAMNITPRLYTDRSRDF C:  EEGPQVKIREASKDNVDFILSNVDLAMANSLRRVMIAEIP TLAIDSVEVETNTTVLADEFIAHRLGLIPLQSMDIEQLEY SRDCFCEDHCDKCSVVLTLQAFGESESTTNVYSKDLVIVS NLMGRNIGHPIIQDKEGNGVLICKLRKGQELKLTCVAKKG IAKEHAKWGPAAAIEFEYDPWNKLKHTDYWYEQDSAKEWP QSKNCEYEDPPNEGDPFDYKAQADTFYMNVESVGSIPVDQ VVVRGIDTLQKKVASILLALTQMDQD D:  STSTFQTRRRRLKKVEEEENAATLQLGQEFQLKQINHQGE EEELIALNLSEARLVIKEALVERRRAFKRSQKKTREKELE SIDVLLEQTTGGNNKDLKNTMQYLTNFSRFRDQETVGAVI QLLKSTGLHPFEVAQLGSLACDTADEAKTLIPSLNNKISD DELERILKELSNLETLY E:  DQENERNISRLWRAFRTVKEMVKDRGYFITQEEVELPLED FKAKYCDSMGRPQRKMMSFQANPTEESISKFPDMGSLWVE FCDEPSVGVKTMKTFVIHIQEKNFQTGIFVYQNNITPSAM KLVPSIPPATIETFNEAALVVNITHHELVPKHIRLSSDEK RELLKRYRLKESQLPRIQRADPVALYLGLKRGEVVKIIRK SETSGRYASYRICM F:  KAIPKDQRATTPYMTKYERARILGTRALQISMNAPVFVDL EGETDPLRIAMKELAEKKIPLVIRRYLPDGSFEDWSVEEL IVDL G:  MFFIKDLSLNITLHPSFFGPRMKQYLKTKLLEEVEGSCTG KFGYILCVLDYDNIDIQRGRILPTDGSAEFNVKYRAVVFK PFKGEVVDGTVVSCSQHGFEVQVGPMKVFVTKHLMPQDLT FNAGSNPPSYQSSEDVITIKSRIRVKIEGCISQVSSIHAI GSIKEDYLGAI H:  SNTLFDDIFQVSEVDPGRYNKVCRIEAASTTQDQCKLTLD INVELFPVAAQDSLTVTIASSLTRSWRPPQAGDRSLADDY DYVMYGTAYKFEEVSKDLIAVYYSFGGLLMRLEGNYRNLN NLKQENAYLLIRR I:  TTFRFCRDCNNMLYPREDKENNRLLFECRTCSYVEEAGSP LVYRHELITNIGETAGVVQDIGSDPTLPRSDRECPKCHSR ENVFFQSQQRRKDTSMVLFFVCLSCSHIFTSDQKNKRTQ J:  MIVPVRCFSCGKVVGDKWESYLNLLQEDELDEGTALSRLG LKRYCCRRMILTHVDLIEKFLRYNP K:  MNAPDRFELFLLGEGESKLKIDPDTKAPNAVVITFEKEDH TLGNLIRAELLNDRKVLFAAYKVEHPFFARFKLRIQTTEG YDPKDALKNACNSIINKLGALKTNFETEWNLQTLA L:  ATLKYICAECSSKLSLSRTDAVRCKDCGHRILLKARTKRL VQFEAR Description (1)  DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT (E.C.2.7.7.6), DNA-DIRECTED RNA POLYMERASE II SECOND LARGEST SUBUNIT (E.C.2.7.7.6), DNA-DIRECTED RNA POLYMERASE II 45 KDA POLYPEPTIDE (E.C.2.7.7.6), DNA-DIRECTED RNA POLYMERASE II 32 KDA POLYPEPTIDE (E.C.2.7.7.6), DNA-DIRECTED RNA POLYMERASES I, II, AND III 27 KDA POLYPEPTIDE (E.C.2.7.7.6), DNA-DIRECTED RNA POLYMERASES I, II, AND III 23 KDA POLYPEPTIDE (E.C.2.7.7.6), DNA-DIRECTED RNA POLYMERASE II 19 KD POLYPEPTIDE (E.C.2.7.7.6), DNA-DIRECTED RNA POLYMERASES I, II, AND III 14.5 KDA POLYPEPTIDE (E.C.2.7.7.6), DNA-DIRECTED RNA POLYMERASE II 14.2 KDA POLYPEPTIDE (E.C.2.7.7.6), DNA-DIRECTED RNA POLYMERASES I, II AND III 8.3 KDA POLYPEPTIDE (E.C.2.7.7.6), DNA-DIRECTED RNA POLYMERASE II 13.6 KDA POLYPEPTIDE (E.C.2.7.7.6), DNA-DIRECTED RNA POLYMERASES I, II, AND III 7.7 KDA POLYPEPTIDE (E.C.2.7.7.6) Functional site 1) chain A residue 108 type sequence M description BINDING SITE FOR RESIDUE ZN A2456 source : AC1 2) chain A residue 110 type sequence C description BINDING SITE FOR RESIDUE ZN A2456 source : AC1 3) chain A residue 148 type sequence C description BINDING SITE FOR RESIDUE ZN A2456 source : AC1 4) chain A residue 167 type sequence C description BINDING SITE FOR RESIDUE ZN A2456 source : AC1 5) chain A residue 67 type sequence C description BINDING SITE FOR RESIDUE ZN A2457 source : AC2 6) chain A residue 70 type sequence C description BINDING SITE FOR RESIDUE ZN A2457 source : AC2 7) chain A residue 77 type sequence C description BINDING SITE FOR RESIDUE ZN A2457 source : AC2 8) chain A residue 80 type sequence H description BINDING SITE FOR RESIDUE ZN A2457 source : AC2 9) chain A residue 481 type sequence D description BINDING SITE FOR RESIDUE MG A2458 source : AC3 10) chain A residue 483 type sequence D description BINDING SITE FOR RESIDUE MG A2458 source : AC3 11) chain A residue 485 type sequence D description BINDING SITE FOR RESIDUE MG A2458 source : AC3 12) chain B residue 1163 type sequence C description BINDING SITE FOR RESIDUE ZN B2225 source : AC4 13) chain B residue 1166 type sequence C description BINDING SITE FOR RESIDUE ZN B2225 source : AC4 14) chain B residue 1182 type sequence C description BINDING SITE FOR RESIDUE ZN B2225 source : AC4 15) chain B residue 1185 type sequence C description BINDING SITE FOR RESIDUE ZN B2225 source : AC4 16) chain C residue 86 type sequence C description BINDING SITE FOR RESIDUE ZN C1269 source : AC5 17) chain C residue 88 type sequence C description BINDING SITE FOR RESIDUE ZN C1269 source : AC5 18) chain C residue 91 type sequence H description BINDING SITE FOR RESIDUE ZN C1269 source : AC5 19) chain C residue 92 type sequence C description BINDING SITE FOR RESIDUE ZN C1269 source : AC5 20) chain C residue 95 type sequence C description BINDING SITE FOR RESIDUE ZN C1269 source : AC5 21) chain I residue 7 type sequence C description BINDING SITE FOR RESIDUE ZN I1121 source : AC6 22) chain I residue 10 type sequence C description BINDING SITE FOR RESIDUE ZN I1121 source : AC6 23) chain I residue 29 type sequence C description BINDING SITE FOR RESIDUE ZN I1121 source : AC6 24) chain I residue 32 type sequence C description BINDING SITE FOR RESIDUE ZN I1121 source : AC6 25) chain I residue 75 type sequence C description BINDING SITE FOR RESIDUE ZN I1122 source : AC7 26) chain I residue 78 type sequence C description BINDING SITE FOR RESIDUE ZN I1122 source : AC7 27) chain I residue 103 type sequence C description BINDING SITE FOR RESIDUE ZN I1122 source : AC7 28) chain I residue 106 type sequence C description BINDING SITE FOR RESIDUE ZN I1122 source : AC7 29) chain J residue 7 type sequence C description BINDING SITE FOR RESIDUE ZN J1066 source : AC8 30) chain J residue 10 type sequence C description BINDING SITE FOR RESIDUE ZN J1066 source : AC8 31) chain J residue 45 type sequence C description BINDING SITE FOR RESIDUE ZN J1066 source : AC8 32) chain J residue 46 type sequence C description BINDING SITE FOR RESIDUE ZN J1066 source : AC8 33) chain L residue 31 type sequence C description BINDING SITE FOR RESIDUE ZN L1071 source : AC9 34) chain L residue 34 type sequence C description BINDING SITE FOR RESIDUE ZN L1071 source : AC9 35) chain L residue 48 type sequence C description BINDING SITE FOR RESIDUE ZN L1071 source : AC9 36) chain L residue 51 type sequence C description BINDING SITE FOR RESIDUE ZN L1071 source : AC9 37) chain B residue 837 type catalytic sequence D description 788 source MCSA : MCSA1 38) chain A residue 483 type catalytic sequence D description 788 source MCSA : MCSA1 39) chain A residue 485 type catalytic sequence D description 788 source MCSA : MCSA1 40) chain L residue 31 type BINDING sequence C description source Swiss-Prot : SWS_FT_FI2 41) chain L residue 34 type BINDING sequence C description source Swiss-Prot : SWS_FT_FI2 42) chain L residue 48 type BINDING sequence C description source Swiss-Prot : SWS_FT_FI2 43) chain L residue 51 type BINDING sequence C description source Swiss-Prot : SWS_FT_FI2 44) chain B residue 1185 type BINDING sequence C description source Swiss-Prot : SWS_FT_FI2 45) chain I residue 40 type MOD_RES sequence S description Phosphoserine => ECO:0007744|PubMed:18407956 source Swiss-Prot : SWS_FT_FI5 46) 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 47) 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 48) 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 49) 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 50) 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 51) 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 52) 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 53) 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 54) chain L residue 31-51 type ZN_FING sequence CAECSSKLSLSRTDAVRCKDC description C4-type source Swiss-Prot : SWS_FT_FI1 55) chain A residue 483 type ZN_FING sequence D description C4-type source Swiss-Prot : SWS_FT_FI1 56) chain A residue 485 type ZN_FING sequence D description C4-type source Swiss-Prot : SWS_FT_FI1 57) chain J residue 10 type ZN_FING sequence C description C4-type source Swiss-Prot : SWS_FT_FI1 58) chain J residue 45 type ZN_FING sequence C description C4-type source Swiss-Prot : SWS_FT_FI1 59) chain J residue 46 type ZN_FING sequence C description C4-type source Swiss-Prot : SWS_FT_FI1 60) chain A residue 107 type ZN_FING sequence C description C4-type source Swiss-Prot : SWS_FT_FI1 61) chain A residue 110 type ZN_FING sequence C description C4-type source Swiss-Prot : SWS_FT_FI1 62) chain A residue 148 type ZN_FING sequence C description C4-type source Swiss-Prot : SWS_FT_FI1 63) chain A residue 167 type ZN_FING sequence C description C4-type source Swiss-Prot : SWS_FT_FI1 64) chain A residue 481 type ZN_FING sequence D description C4-type source Swiss-Prot : SWS_FT_FI1 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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