6EU1: RNA Polymerase III - open DNA complex (OC-POL3)

RNA Polymerase III - open DNA complex (OC-POL3). Determined by electron microscopy at 3.4 Å resolution. Released 17 Jan 2018.

Method
Electron microscopy
Resolution
3.4 Å
Organisms
Saccharomyces cerevisiae (strain ATCC 204508 / S288c), Saccharomyces cerevisiae S288c
Chains
19
Atoms
40,547
Mol. weight
737.68 kDa
Ligands
MG, ZN
Released
17 Jan 2018

Explore 6EU1 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6EU1 contains 183 α-helices and 239 β-strands across 17 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 52 helices, 61 β-strands

ElementResiduesLengthSheet
β-strand1111
β-strand14-1742
β-strand2013
α-helix23-264
β-strand32-3324
β-strand3815
β-strand5215
β-strand82-91104
α-helix98-1036
β-strand10616
β-strand11316
α-helix117-12711
α-helix134-14714
β-strand15317
β-strand16017
β-strand179-18028
α-helix192-20211
α-helix209-2113
β-strand220-22128
α-helix224-2318
β-strand257-26374
α-helix2641
α-helix281-2833
α-helix284-30118
α-helix309-32214
α-helix3631
α-helix364-3696
β-strand371-37339
β-strand376-380510
β-strand381-383311
β-strand391112
β-strand393111
β-strand394-395213
β-strand403-405314
β-strand430-434514
β-strand441-443314
β-strand463-465314
α-helix4661
β-strand473-475310
α-helix482-4843
β-strand485-487310
β-strand489112
β-strand492-493213
β-strand498-500311
β-strand516-518310
α-helix525-5317
β-strand536110
β-strand542115
β-strand549115
α-helix555-5584
β-strand571116
α-helix573-58311
α-helix593-5953
β-strand597117
β-strand603117
β-strand604116
α-helix607-6148
β-strand625-628418
β-strand652-655418
β-strand659-661318
α-helix677-6848
α-helix686-70823
α-helix722-74625
α-helix750-7534
α-helix761-78222
α-helix785-7862
α-helix790-7978
α-helix803-8086
β-strand818119
β-strand821119
α-helix858-87013
α-helix875-89117
β-strand897-898220
β-strand904-905220
β-strand911-913320
α-helix916-9183
β-strand921121
α-helix935-94511
α-helix958-9625
β-strand977122
β-strand983122
α-helix999-102527
α-helix1029-10302
α-helix1053-10597
α-helix1066-107914
β-strand1082121
α-helix1083-10842
α-helix1089-10946
α-helix1123-11319
β-strand1140-1145623
α-helix1156-11594
β-strand1164124
β-strand1170125
β-strand1172126
β-strand1186127
β-strand1188125
α-helix1190-11956
α-helix1204-12107
β-strand1230127
α-helix1237-12437
α-helix1251-12544
α-helix1260-12656
β-strand1273124
β-strand1280-1285623
β-strand1291-1296623
β-strand1309-1316823
α-helix1319-13257
α-helix1329-134416
α-helix1353-13586
α-helix1383-13864
α-helix1392-140110
α-helix1424-14263
β-strand1429-1432428
Chain B: 40 helices, 68 β-strands
ElementResiduesLengthSheet
α-helix47-548
α-helix62-676
α-helix68-725
α-helix73-764
β-strand83129
β-strand93129
β-strand95-100630
α-helix117-1204
β-strand126131
β-strand129-133530
β-strand146-150530
β-strand153131
α-helix154-1552
α-helix170-1734
β-strand185-187332
β-strand190-192332
α-helix1951
β-strand196133
β-strand197-198234
β-strand206135
α-helix214-2152
β-strand218135
β-strand247136
α-helix253-2597
α-helix268-2714
α-helix280-2834
α-helix284-2863
α-helix301-3066
β-strand309136
α-helix343-35210
α-helix355-3617
β-strand377-378234
α-helix380-40425
α-helix423-43614
β-strand444137
β-strand449137
β-strand457132
α-helix458-4592
α-helix466-4694
β-strand473133
β-strand512133
β-strand520138
α-helix527-53610
β-strand556139
α-helix568-57912
β-strand591-592239
β-strand599-600239
β-strand608138
β-strand611-614440
β-strand615141
β-strand620141
α-helix624-6307
α-helix638-6414
β-strand646-648340
α-helix654-6563
β-strand659-660240
β-strand672-673240
α-helix685-6873
α-helix696-70611
β-strand724-728542
β-strand736-737243
β-strand753-759744
β-strand772-774344
α-helix775-7784
β-strand785-790642
β-strand793-794245
β-strand797146
β-strand803146
β-strand835-836242
β-strand841147
β-strand846-848348
β-strand866-868348
β-strand872147
β-strand879-881342
β-strand885-886245
β-strand895-897345
β-strand899-904642
β-strand911149
β-strand912150
β-strand921149
β-strand925-926244
α-helix938-9403
β-strand942-944344
α-helix946-9483
α-helix957-97014
β-strand974-975243
α-helix988-9947
β-strand1001-1002244
α-helix1012-10132
β-strand1017-1024844
β-strand1026150
α-helix1031-10344
β-strand1036-1038310
β-strand1043151
α-helix10491
β-strand1050151
α-helix1051-10522
β-strand1060-106239
α-helix1064-107310
α-helix1077-10804
α-helix1081-10855
β-strand1090-1095652
β-strand1101-1102252
β-strand1116-1121652
α-helix1123-113513
β-strand113713
β-strand1140-114232
β-strand114511
Chain C: 9 helices, 18 β-strands
ElementResiduesLengthSheet
β-strand4-7453
β-strand12-13253
α-helix35-384
β-strand42-44353
β-strand54-57453
α-helix63-719
β-strand76-851054
α-helix96-1027
β-strand106155
α-helix122-1243
β-strand132-139854
β-strand142156
β-strand157156
β-strand161-162257
α-helix164-1663
β-strand168-169254
β-strand186155
β-strand194-195257
β-strand201-2121254
α-helix217-2193
β-strand229-235753
α-helix243-2475
β-strand256-257258
β-strand266-267258
α-helix278-2803
β-strand289-3001253
α-helix310-32920
Chain D: 8 helices, 1 β-strand
ElementResiduesLengthSheet
β-strand3159
α-helix14-218
α-helix33-364
α-helix53-619
α-helix100-1089
α-helix109-1124
α-helix117-1259
α-helix131-1377
α-helix147-15711
Chain E: 13 helices, 11 β-strands
ElementResiduesLengthSheet
α-helix3-2523
β-strand28160
α-helix32-354
α-helix40-467
β-strand47161
α-helix521
β-strand53161
α-helix541
α-helix55-573
α-helix62-632
β-strand64160
α-helix68-714
β-strand79-82462
α-helix94-996
β-strand108-111462
α-helix120-1223
α-helix138-1403
β-strand153-155363
α-helix158-16710
β-strand177-178264
α-helix183-1886
β-strand196-198363
β-strand210-212363
β-strand213-214264
Chain F: 5 helices, 4 β-strands
ElementResiduesLengthSheet
α-helix73-753
β-strand84165
α-helix88-10215
α-helix105-1073
α-helix117-12711
β-strand132-135428
β-strand145-147328
α-helix148-1503
β-strand152165
Chain G: 4 helices, 14 β-strands
ElementResiduesLengthSheet
β-strand3-4228
β-strand7159
β-strand8-13628
α-helix22-309
α-helix37-382
β-strand39166
β-strand43166
β-strand44-52928
β-strand57-58228
β-strand66-771228
β-strand87-92667
β-strand97-100467
β-strand108-110367
β-strand145-146267
β-strand151168
α-helix163-1664
α-helix169-1746
β-strand197168
Chain H: 1 helix, 16 β-strands
ElementResiduesLengthSheet
β-strand4169
β-strand9-14670
β-strand24-25271
β-strand27-30470
β-strand38170
β-strand41-42271
β-strand53-56470
β-strand58-60369
β-strand95-96269
β-strand97117
β-strand100-103472
α-helix105-1062
β-strand107173
β-strand111173
β-strand114-117472
β-strand122-125472
β-strand141-144469

9 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.

Molecules and chains

MoleculeChainsTypeLengthOrganismUniProt
DNA-directed RNA polymerase III subunit RPC1Aprotein1460Saccharomyces cerevisiae (strain ATCC 204508 / S288c)P04051 (AlphaFold model)
DNA-directed RNA polymerase III subunit RPC2Bprotein1149Saccharomyces cerevisiae (strain ATCC 204508 / S288c)P22276 (AlphaFold model)
DNA-directed RNA polymerases I and III subunit RPAC1Cprotein335Saccharomyces cerevisiae (strain ATCC 204508 / S288c)P07703 (AlphaFold model)
DNA-directed RNA polymerase III subunit RPC9Dprotein161Saccharomyces cerevisiae (strain ATCC 204508 / S288c)P47076 (AlphaFold model)
DNA-directed RNA polymerases I, II, and III subunit RPABC1Eprotein215Saccharomyces cerevisiae (strain ATCC 204508 / S288c)P20434
DNA-directed RNA polymerases I, II, and III subunit RPABC2Fprotein155Saccharomyces cerevisiae (strain ATCC 204508 / S288c)P20435
DNA-directed RNA polymerase III subunit RPC8Gprotein212Saccharomyces cerevisiae (strain ATCC 204508 / S288c)P35718
DNA-directed RNA polymerases I, II, and III subunit RPABC3Hprotein146Saccharomyces cerevisiae (strain ATCC 204508 / S288c)P20436
DNA-directed RNA polymerase III subunit RPC10Iprotein110Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Q04307
DNA-directed RNA polymerases I, II, and III subunit RPABC5Jprotein70Saccharomyces cerevisiae (strain ATCC 204508 / S288c)P22139
DNA-directed RNA polymerases I and III subunit RPAC2Kprotein142Saccharomyces cerevisiae (strain ATCC 204508 / S288c)P28000
DNA-directed RNA polymerases I, II, and III subunit RPABC4Lprotein70Saccharomyces cerevisiae (strain ATCC 204508 / S288c)P40422

7 more molecules are not listed.

Sequence of entity 1 (A), FASTA
>6EU1_1 DNA-directed RNA polymerase III subunit RPC1 (chains A)
MKEVVVSETPKRIKGLEFSALSAADIVAQSEVEVSTRDLFDLEKDRAPKANGALDPKMGV
SSSSLECATCHGNLASCHGHFGHLKLALPVFHIGYFKATIQILQGICKNCSAILLSETDK
RQFLHELRRPGVDNLRRMGILKKILDQCKKQRRCLHCGALNGVVKKAAAGAGSAALKIIH
DTFRWVGKKSAPEKDIWVGEWKEVLAHNPELERYVKRCMDDLNPLKTLNLFKQIKSADCE
LLGIDATVPSGRPETYIWRYLPAPPVCIRPSVMMQDSPASNEDDLTVKLTEIVWTSSLIK
AGLDKGISINNMMEHWDYLQLTVAMYINSDSVNPAMLPGSSNGGGKVKPIRGFCQRLKGK
QGRFRGNLSGKRVDFSGRTVISPDPNLSIDEVAVPDRVAKVLTYPEKVTRYNRHKLQELI
VNGPNVHPGANYLLKRNEDARRNLRYGDRMKLAKNLQIGDVVERHLEDGDVVLFNRQPSL
HRLSILSHYAKIRPWRTFRLNECVCTPYNADFDGDEMNLHVPQTEEARAEAINLMGVKNN
LLTPKSGEPIIAATQDFITGSYLISHKDSFYDRATLTQLLSMMSDGIEHFDIPPPAIMKP
YYLWTGKQVFSLLIKPNHNSPVVINLDAKNKVFVPPKSKSLPNEMSQNDGFVIIRGSQIL
SGVMDKSVLGDGKKHSVFYTILRDYGPQEAANAMNRMAKLCARFLGNRGFSIGINDVTPA
DDLKQKKEELVEIAYHKCDELITLFNKGELETQPGCNEEQTLEAKIGGLLSKVREEVGDV
CINELDNWNAPLIMATCGSKGSTLNVSQMVAVVGQQIISGNRVPDGFQDRSLPHFPKNSK
TPQSKGFVRNSFFSGLSPPEFLFHAISGREGLVDTAVKTAETGYMSRRLMKSLEDLSCQY
DNTVRTSANGIVQFTYGGDGLDPLEMEGNAQPVNFNRSWDHAYNITFNNQDKGLLPYAIM
ETANEILGPLEERLVRYDNSGCLVKREDLNKAEYVDQYDAERDFYHSLREYINGKATALA
NLRKSRGMLGLLEPPAKELQGIDPDETVPDNVKTSVSQLYRISEKSVRKFLEIALFKYRK
ARLEPGTAIGAIGAQSIGEPGTQMTLKTFHFAGVASMNVTLGVPRIKEIINASKVISTPI
INAVLVNDNDERAARVVKGRVEKTLLSDVAFYVQDVYKDNLSFIQVRIDLGTIDKLQLEL
TIEDIAVAITRASKLKIQASDVNIIGKDRIAINVFPEGYKAKSISTSAKEPSENDVFYRM
QQLRRALPDVVVKGLPDISRAVINIRDDGKRELLVEGYGLRDVMCTDGVIGSRTTTNHVL
EVFSVLGIEAARYSIIREINYTMSNHGMSVDPRHIQLLGDVMTYKGEVLGITRFGLSKMR
DSVLQLASFEKTTDHLFDAAFYMKKDAVEGVSECIILGQTMSIGTGSFKVVKGTNISEKD
LVPKRCLFESLSNEAALKAN
Sequence of entity 2 (B), FASTA
>6EU1_2 DNA-directed RNA polymerase III subunit RPC2 (chains B)
MVAATKRRKTHIHKHVKDEAFDDLLKPVYKGKKLTDEINTAQDKWHLLPAFLKVKGLVKQ
HLDSFNYFVDTDLKKIIKANQLILSDVDPEFYLKYVDIRVGKKSSSSTKDYLTPPHECRL
RDMTYSAPIYVDIEYTRGRNIIMHKDVEIGRMPIMLRSNKCILYDADESKMAKLNECPLD
PGGYFIVNGTEKVILVQEQLSKNRIIVEADEKKGIVQASVTSSTHERKSKTYVITKNGKI
YLKHNSIAEEIPIAIVLKACGILSDLEIMQLVCGNDSSYQDIFAVNLEESSKLDIYTQQQ
ALEYIGAKVKTMRRQKLTILQEGIEAIATTVIAHLTVEALDFREKALYIAMMTRRVVMAM
YNPKMIDDRDYVGNKRLELAGQLISLLFEDLFKKFNNDFKLSIDKVLKKPNRAMEYDALL
SINVHSNNITSGLNRAISTGNWSLKRFKMERAGVTHVLSRLSYISALGMMTRISSQFEKS
RKVSGPRALQPSQFGMLCTADTPEGEACGLVKNLALMTHITTDDEEEPIKKLCYVLGVED
ITLIDSASLHLNYGVYLNGTLIGSIRFPTKFVTQFRHLRRTGKVSEFISIYSNSHQMAVH
IATDGGRICRPLIIVSDGQSRVKDIHLRKLLDGELDFDDFLKLGLVEYLDVNEENDSYIA
LYEKDIVPSMTHLEIEPFTILGAVAGLIPYPHHNQSPRNTYQCAMGKQAIGAIAYNQFKR
IDTLLYLMTYPQQPMVKTKTIELIDYDKLPAGQNATVAVMSYSGYDIEDALVLNKSSIDR
GFGRCETRRKTTTVLKRYANHTQDIIGGMRVDENGDPIWQHQSLGPDGLGEVGMKVQSGQ
IYINKSVPTNSADAPNPNNVNVQTQYREAPVIYRGPEPSHIDQVMMSVSDNDQALIKVLL
RQNRRPELGDKFSSRHGQKGVCGIIVKQEDMPFNDQGIVPDIIMNPHGFPSRMTVGKMIE
LISGKAGVLNGTLEYGTCFGGSKLEDMSKILVDQGFNYSGKDMLYSGITGECLQAYIFFG
PIYYQKLKHMVLDKMHARARGPRAVLTRQPTEGRSRDGGLRLGEMERDCVIAYGASQLLL
ERLMISSDAFEVDVCDKCGLMGYSGWCTTCKSAENIIKMTIPYAAKLLFQELLSMNIAPR
LRLEDIFQQ
Sequence of entity 3 (C), FASTA
>6EU1_3 DNA-directed RNA polymerases I and III subunit RPAC1 (chains C)
MSNIVGIEYNRVTNTTSTDFPGFSKDAENEWNVEKFKKDFEVNISSLDAREANFDLINID
TSIANAFRRIMISEVPSVAAEYVYFFNNTSVIQDEVLAHRIGLVPLKVDPDMLTWVDSNL
PDDEKFTDENTIVLSLNVKCTRNPDAPKGSTDPKELYNNAHVYARDLKFEPQGRQSTTFA
DCPVVPADPDILLAKLRPGQEISLKAHCILGIGGDHAKFSPVSTASYRLLPQINILQPIK
GESARRFQKCFPPGVIGIDEGSDEAYVKDARKDTVSREVLRYEEFADKVKLGRVRNHFIF
NVESAGAMTPEEIFFKSVRILKNKAEYLKNCPITQ
Sequence of entity 4 (D), FASTA
>6EU1_4 DNA-directed RNA polymerase III subunit RPC9 (chains D)
MKVLEERNAFLSDYEVLKFLTDLEKKHLWDQKSLAALKKSRSKGKQNRPYNHPELQGITR
NVVNYLSINKNFINQEDEGEERESSGAKDAEKSGISKMSDESFAELMTKLNSFKLFKAEK
LQIVNQLPANMVHLYSIVEECDARFDEKTIEEMLEIISGYA
Sequence of entity 5 (E), FASTA
>6EU1_5 DNA-directed RNA polymerases I, II, and III subunit RPABC1 (chains E)
MDQENERNISRLWRAFRTVKEMVKDRGYFITQEEVELPLEDFKAKYCDSMGRPQRKMMSF
QANPTEESISKFPDMGSLWVEFCDEPSVGVKTMKTFVIHIQEKNFQTGIFVYQNNITPSA
MKLVPSIPPATIETFNEAALVVNITHHELVPKHIRLSSDEKRELLKRYRLKESQLPRIQR
ADPVALYLGLKRGEVVKIIRKSETSGRYASYRICM
Sequence of entity 6 (F), FASTA
>6EU1_6 DNA-directed RNA polymerases I, II, and III subunit RPABC2 (chains F)
MSDYEEAFNDGNENFEDFDVEHFSDEETYEEKPQFKDGETTDANGKTIVTGGNGPEDFQQ
HEQIRRKTLKEKAIPKDQRATTPYMTKYERARILGTRALQISMNAPVFVDLEGETDPLRI
AMKELAEKKIPLVIRRYLPDGSFEDWSVEELIVDL
Sequence of entity 7 (G), FASTA
>6EU1_7 DNA-directed RNA polymerase III subunit RPC8 (chains G)
MFILSKIADLVRIPPDQFHRDTISAITHQLNNKFANKIIPNVGLCITIYDLLTVEEGQLK
PGDGSSYINVTFRAVVFKPFLGEIVTGWISKCTAEGIKVSLLGIFDDIFIPQNMLFEGCY
YTPEESAWIWPMDEETKLYFDVNEKIRFRIEREVFVDVKPKSPKERELEERAQLENEIEG
KNEETPQNEKPPAYALLGSCQTDGMGLVSWWE
Sequence of entity 8 (H), FASTA
>6EU1_8 DNA-directed RNA polymerases I, II, and III subunit RPABC3 (chains H)
MSNTLFDDIFQVSEVDPGRYNKVCRIEAASTTQDQCKLTLDINVELFPVAAQDSLTVTIA
SSLNLEDTPANDSSATRSWRPPQAGDRSLADDYDYVMYGTAYKFEEVSKDLIAVYYSFGG
LLMRLEGNYRNLNNLKQENAYLLIRR
Sequence of entity 9 (I), FASTA
>6EU1_9 DNA-directed RNA polymerase III subunit RPC10 (chains I)
MLSFCPSCNNMLLITSGDSGVYTLACRSCPYEFPIEGIEIYDRKKLPRKEVDDVLGGGWD
NVDQTKTQCPNYDTCGGESAYFFQLQIRSADEPMTTFYKCVNCGHRWKEN
Sequence of entity 10 (J), FASTA
>6EU1_10 DNA-directed RNA polymerases I, II, and III subunit RPABC5 (chains J)
MIVPVRCFSCGKVVGDKWESYLNLLQEDELDEGTALSRLGLKRYCCRRMILTHVDLIEKF
LRYNPLEKRD
Sequence of entity 11 (K), FASTA
>6EU1_11 DNA-directed RNA polymerases I and III subunit RPAC2 (chains K)
MTEDIEQKKTATEVTPQEPKHIQEEEEQDVDMTGDEEQEEEPDREKIKLLTQATSEDGTS
ASFQIVEEDHTLGNALRYVIMKNPDVEFCGYSIPHPSENLLNIRIQTYGETTAVDALQKG
LKDLMDLCDVVESKFTEKIKSM
Sequence of entity 12 (L), FASTA
>6EU1_12 DNA-directed RNA polymerases I, II, and III subunit RPABC4 (chains L)
MSREGFQIPTNLDAAAAGTSQARTATLKYICAECSSKLSLSRTDAVRCKDCGHRILLKAR
TKRLVQFEAR

Ligands and cofactors

IDNameFormulaCopies
MGMagnesium ionMg1
ZNZinc ionZn6

Primary citation

Structural basis of RNA polymerase III transcription initiation. Abascal-Palacios, G., Ramsay, E.P., Beuron, F. et al. Nature (2018) 553:301-306. DOI 10.1038/nature25441 · PubMed

Other PDB entries of the same protein (UniProt P04051 (AlphaFold model), which also has an AlphaFold model), best resolution first:

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