6F44: RNA Polymerase III closed complex CC2

RNA Polymerase III closed complex CC2. Determined by electron microscopy at 4.2 Å resolution. Released 17 Jan 2018.

Method
Electron microscopy
Resolution
4.2 Å
Organisms
Saccharomyces cerevisiae (strain ATCC 204508 / S288c), Saccharomyces cerevisiae
Chains
22
Atoms
45,251
Mol. weight
906.36 kDa
Ligands
ZN
Released
17 Jan 2018

Explore 6F44 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

6F44 contains 241 α-helices and 270 β-strands across 20 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: 65 helices, 63 β-strands

ElementResiduesLengthSheet
β-strand411
β-strand11-1332
β-strand17-1933
α-helix26-294
β-strand32-3324
β-strand82-8324
β-strand9015
α-helix101-1044
β-strand10616
β-strand11316
α-helix117-1237
α-helix125-1284
α-helix134-14815
β-strand15317
β-strand16017
β-strand163-16648
β-strand178-18148
α-helix194-20613
β-strand22118
α-helix228-2314
α-helix236-2427
α-helix249-2513
α-helix253-2564
β-strand25815
β-strand262-26324
α-helix264-2652
α-helix286-30520
α-helix309-32618
α-helix329-3313
α-helix349-3513
α-helix354-3574
β-strand37219
β-strand376-383810
β-strand391-395510
α-helix396-3994
β-strand403-407511
α-helix413-4208
β-strand430-434511
β-strand442-443211
α-helix450-4534
β-strand461-465511
α-helix4661
β-strand471-475510
α-helix482-4843
β-strand485-493910
β-strand498-500310
α-helix502-5043
α-helix505-5084
β-strand516-520510
α-helix527-5359
β-strand536110
α-helix537-5393
β-strand542112
β-strand549112
α-helix557-5648
β-strand570-571213
α-helix573-5808
α-helix592-5954
β-strand597114
β-strand603114
β-strand604-605213
α-helix608-6147
β-strand625-628415
β-strand652-655415
β-strand659115
α-helix677-6848
α-helix686-70823
α-helix722-74221
α-helix761-7644
α-helix766-78318
α-helix790-7967
α-helix805-8106
β-strand815116
β-strand827117
β-strand830117
β-strand847116
α-helix858-87316
α-helix875-89117
β-strand896-899418
β-strand903-906418
β-strand911-913318
β-strand921119
β-strand927120
α-helix928-9303
β-strand931120
α-helix935-94511
α-helix956-9649
α-helix967-9726
β-strand977121
β-strand983121
α-helix1000-102526
α-helix1034-10352
α-helix1050-105910
α-helix1065-10684
α-helix1070-108011
β-strand1082119
α-helix1083-10842
β-strand1088118
α-helix1089-10979
α-helix1123-11319
β-strand1140-1144522
β-strand1145123
α-helix1156-11616
β-strand1164-1165224
α-helix1166-11694
β-strand1170-1176725
β-strand1183-1188625
α-helix1190-11956
α-helix1203-12108
β-strand1222-1225425
β-strand1229-1233525
α-helix1255-126612
β-strand1271-1273324
β-strand1281-1285522
β-strand1291-1296622
α-helix1301-13055
β-strand1309123
α-helix1319-13257
α-helix1329-134416
α-helix1353-136210
α-helix1373-13797
α-helix1383-13875
α-helix1394-14018
β-strand140513
α-helix1411-14177
α-helix1424-14263
β-strand1429-143241
α-helix1438-14403
Chain B: 47 helices, 67 β-strands
ElementResiduesLengthSheet
α-helix45-473
α-helix48-547
α-helix59-679
α-helix68-725
α-helix73-775
β-strand83-84226
β-strand92-100926
α-helix115-1184
β-strand126-1361126
β-strand141-1531326
α-helix170-1734
β-strand185127
β-strand192-194327
β-strand196-200528
β-strand205-207329
β-strand216-221629
β-strand229-236829
β-strand239-244629
β-strand247130
β-strand251129
α-helix253-2564
α-helix267-2726
α-helix279-2835
α-helix288-2936
α-helix300-3067
β-strand309130
α-helix344-36118
α-helix363-3653
α-helix366-3683
α-helix372-3743
β-strand375-378428
α-helix381-40020
α-helix404-4074
α-helix419-4213
α-helix426-4283
α-helix430-4389
β-strand441131
β-strand452131
β-strand455-457327
α-helix458-4592
α-helix463-4686
β-strand473-474228
β-strand497132
β-strand511-512228
β-strand514132
β-strand519-520233
α-helix527-5359
α-helix546-5516
β-strand555-557334
β-strand560-561234
α-helix568-58114
β-strand589135
β-strand599-601334
β-strand602135
β-strand608-613633
β-strand615136
β-strand620136
α-helix624-6329
α-helix638-6436
β-strand646-650533
α-helix653-6564
β-strand660137
α-helix663-6653
β-strand673137
α-helix691-6933
α-helix697-70610
β-strand724-728538
β-strand736-737239
β-strand753-759740
β-strand770-774540
α-helix775-7795
β-strand785-7941038
β-strand805141
β-strand812142
β-strand815142
β-strand829143
α-helix830-8312
β-strand835-836238
β-strand839-843543
β-strand846-848341
β-strand866-868341
β-strand871-873343
β-strand879-8881038
β-strand894-9031038
α-helix9101
β-strand911-912240
β-strand920-926740
β-strand933144
α-helix938-9403
β-strand942-943240
α-helix946-9483
α-helix949-9524
α-helix955-96915
β-strand974-975239
α-helix985-99410
β-strand1005144
β-strand1018-1024740
β-strand1026140
α-helix1031-10333
β-strand1037-1038210
β-strand1043145
β-strand1050145
α-helix10511
β-strand106119
α-helix1064-107310
α-helix1078-10803
α-helix1081-10855
β-strand1089-1095746
β-strand1101146
β-strand1116-1122746
α-helix1123-11264
α-helix1128-11347
β-strand1138-114033
β-strand1143-114532
Chain C: 10 helices, 23 β-strands
ElementResiduesLengthSheet
β-strand4-5247
α-helix33-375
β-strand41-44448
β-strand48148
β-strand51-57748
α-helix61-7111
β-strand77-881249
α-helix94-1029
β-strand106150
α-helix108-1092
β-strand131-139949
β-strand141-142251
β-strand157-158251
β-strand161-163352
α-helix164-1663
β-strand168-170349
α-helix171-1722
β-strand186150
β-strand192-195452
β-strand201-2111149
β-strand222153
β-strand226-228348
β-strand231-235547
α-helix243-2486
β-strand256-259454
β-strand264-267454
α-helix278-2803
β-strand289-294647
β-strand297-303748
β-strand304153
α-helix310-32718
α-helix328-3303
β-strand334155
Chain D: 7 helices, 2 β-strands
ElementResiduesLengthSheet
β-strand2-321
β-strand9-1021
α-helix13-2513
α-helix55-639
α-helix68-714
α-helix100-1034
α-helix118-1203
α-helix134-1374
α-helix149-1579
Chain E: 12 helices, 10 β-strands
ElementResiduesLengthSheet
α-helix3-53
α-helix8-2619
β-strand28156
α-helix32-354
α-helix39-457
α-helix52-543
β-strand60-62357
α-helix631
β-strand64156
α-helix651
α-helix66-716
β-strand77-81557
α-helix90-10011
β-strand105-112857
α-helix118-1214
β-strand133-136457
β-strand153-155358
α-helix158-1647
β-strand177-178258
α-helix185-1884
β-strand195-202858
β-strand206-214958
Chain F: 4 helices, 6 β-strands
ElementResiduesLengthSheet
β-strand84159
α-helix87-10115
α-helix105-1073
α-helix117-12610
β-strand132-13541
α-helix136-1372
β-strand138160
β-strand142160
β-strand145-14731
β-strand152159
Chain G: 3 helices, 11 β-strands
ElementResiduesLengthSheet
β-strand3-13111
α-helix15-173
α-helix22-3413
β-strand37-3931
β-strand43-4861
β-strand53-5421
β-strand57-5821
β-strand66-76111
β-strand84-87461
β-strand97162
β-strand110162
β-strand146-154961
β-strand195-199561
α-helix208-2103
Chain H: 0 helices, 11 β-strands
ElementResiduesLengthSheet
β-strand4-161363
β-strand23-30863
β-strand37-43763
β-strand54-60763
β-strand95-96263
β-strand99164
β-strand100-108963
β-strand111-117763
β-strand122-127663
β-strand140164
β-strand141-144463

12 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

10 more molecules are not listed.

Sequence of entity 1 (A), FASTA
>6F44_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
>6F44_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
>6F44_3 DNA-directed RNA polymerases I and III subunit RPAC1 (chains C)
MSNIVGIEYNRVTNTTSTDFPGFSKDAENEWNVEKFKKDFEVNISSLDAREANFDLINID
TSIANAFRRIMISEVPSVAAEYVYFFNNTSVIQDEVLAHRIGLVPLKVDPDMLTWVDSNL
PDDEKFTDENTIVLSLNVKCTRNPDAPKGSTDPKELYNNAHVYARDLKFEPQGRQSTTFA
DCPVVPADPDILLAKLRPGQEISLKAHCILGIGGDHAKFSPVSTASYRLLPQINILQPIK
GESARRFQKCFPPGVIGIDEGSDEAYVKDARKDTVSREVLRYEEFADKVKLGRVRNHFIF
NVESAGAMTPEEIFFKSVRILKNKAEYLKNCPITQ
Sequence of entity 4 (D), FASTA
>6F44_4 DNA-directed RNA polymerase III subunit RPC9 (chains D)
MKVLEERNAFLSDYEVLKFLTDLEKKHLWDQKSLAALKKSRSKGKQNRPYNHPELQGITR
NVVNYLSINKNFINQEDEGEERESSGAKDAEKSGISKMSDESFAELMTKLNSFKLFKAEK
LQIVNQLPANMVHLYSIVEECDARFDEKTIEEMLEIISGYA
Sequence of entity 5 (E), FASTA
>6F44_5 DNA-directed RNA polymerases I, II, and III subunit RPABC1 (chains E)
MDQENERNISRLWRAFRTVKEMVKDRGYFITQEEVELPLEDFKAKYCDSMGRPQRKMMSF
QANPTEESISKFPDMGSLWVEFCDEPSVGVKTMKTFVIHIQEKNFQTGIFVYQNNITPSA
MKLVPSIPPATIETFNEAALVVNITHHELVPKHIRLSSDEKRELLKRYRLKESQLPRIQR
ADPVALYLGLKRGEVVKIIRKSETSGRYASYRICM
Sequence of entity 6 (F), FASTA
>6F44_6 DNA-directed RNA polymerases I, II, and III subunit RPABC2 (chains F)
MSDYEEAFNDGNENFEDFDVEHFSDEETYEEKPQFKDGETTDANGKTIVTGGNGPEDFQQ
HEQIRRKTLKEKAIPKDQRATTPYMTKYERARILGTRALQISMNAPVFVDLEGETDPLRI
AMKELAEKKIPLVIRRYLPDGSFEDWSVEELIVDL
Sequence of entity 7 (G), FASTA
>6F44_7 DNA-directed RNA polymerase III subunit RPC8 (chains G)
MFILSKIADLVRIPPDQFHRDTISAITHQLNNKFANKIIPNVGLCITIYDLLTVEEGQLK
PGDGSSYINVTFRAVVFKPFLGEIVTGWISKCTAEGIKVSLLGIFDDIFIPQNMLFEGCY
YTPEESAWIWPMDEETKLYFDVNEKIRFRIEREVFVDVKPKSPKERELEERAQLENEIEG
KNEETPQNEKPPAYALLGSCQTDGMGLVSWWE
Sequence of entity 8 (H), FASTA
>6F44_8 DNA-directed RNA polymerases I, II, and III subunit RPABC3 (chains H)
MSNTLFDDIFQVSEVDPGRYNKVCRIEAASTTQDQCKLTLDINVELFPVAAQDSLTVTIA
SSLNLEDTPANDSSATRSWRPPQAGDRSLADDYDYVMYGTAYKFEEVSKDLIAVYYSFGG
LLMRLEGNYRNLNNLKQENAYLLIRR
Sequence of entity 9 (I), FASTA
>6F44_9 DNA-directed RNA polymerase III subunit RPC10 (chains I)
MLSFCPSCNNMLLITSGDSGVYTLACRSCPYEFPIEGIEIYDRKKLPRKEVDDVLGGGWD
NVDQTKTQCPNYDTCGGESAYFFQLQIRSADEPMTTFYKCVNCGHRWKEN
Sequence of entity 10 (J), FASTA
>6F44_10 DNA-directed RNA polymerases I, II, and III subunit RPABC5 (chains J)
MIVPVRCFSCGKVVGDKWESYLNLLQEDELDEGTALSRLGLKRYCCRRMILTHVDLIEKF
LRYNPLEKRD
Sequence of entity 11 (K), FASTA
>6F44_11 DNA-directed RNA polymerases I and III subunit RPAC2 (chains K)
MTEDIEQKKTATEVTPQEPKHIQEEEEQDVDMTGDEEQEEEPDREKIKLLTQATSEDGTS
ASFQIVEEDHTLGNALRYVIMKNPDVEFCGYSIPHPSENLLNIRIQTYGETTAVDALQKG
LKDLMDLCDVVESKFTEKIKSM
Sequence of entity 12 (L), FASTA
>6F44_12 DNA-directed RNA polymerases I, II, and III subunit RPABC4 (chains L)
MSREGFQIPTNLDAAAAGTSQARTATLKYICAECSSKLSLSRTDAVRCKDCGHRILLKAR
TKRLVQFEAR

Ligands and cofactors

IDNameFormulaCopies
ZNZinc ionZn7

Primary citation

Molecular mechanism of promoter opening by RNA polymerase III. Vorlander, M.K., Khatter, H., Wetzel, R. et al. Nature (2018) 553:295-300. DOI 10.1038/nature25440 · 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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