7A6H: Human apo RNA Polymerase III

Cryo-EM structure of human apo RNA Polymerase III. Determined by electron microscopy at 3.3 Å resolution. Released 3 Feb 2021.

Method
Electron microscopy
Resolution
3.3 Å
Organism
Homo sapiens
Chains
17
Atoms
40,216
Mol. weight
709.16 kDa
Ligands
SF4, MG, ZN
Released
3 Feb 2021

Explore 7A6H in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7A6H contains 237 α-helices and 282 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: 69 helices, 64 β-strands

ElementResiduesLengthSheet
β-strand4-521
α-helix13-142
β-strand15-2172
α-helix25-317
β-strand34-3523
β-strand4214
β-strand5014
β-strand84-93103
α-helix98-10710
β-strand10815
β-strand11515
α-helix119-12810
α-helix136-15116
β-strand15516
β-strand16216
β-strand166-16837
β-strand174-17637
α-helix186-1872
α-helix188-1958
α-helix198-2025
α-helix207-2104
β-strand216-21837
α-helix220-2278
α-helix236-2383
α-helix247-2504
β-strand251-25773
α-helix278-29619
α-helix303-32119
α-helix330-3323
α-helix352-3565
β-strand36018
β-strand364-36859
β-strand369110
β-strand379-38359
α-helix384-3874
β-strand391-395511
α-helix401-4099
β-strand418111
β-strand420-422311
β-strand429-431311
α-helix437-4404
α-helix444-4452
β-strand449-453511
β-strand459-46469
α-helix470-4723
β-strand473-48199
β-strand486110
β-strand487-48829
α-helix490-4923
α-helix493-4964
β-strand504-50859
α-helix513-52210
β-strand52419
β-strand530112
β-strand537112
β-strand541113
α-helix546-5527
β-strand558-559214
α-helix561-5688
α-helix569-5713
α-helix574-5774
α-helix583-5864
β-strand588115
β-strand592116
β-strand594115
β-strand595-596214
α-helix597-6059
β-strand616-620517
β-strand637-641517
β-strand645-647317
α-helix652-6554
β-strand656113
α-helix663-69432
α-helix700-7023
α-helix707-73226
α-helix738-7392
α-helix744-77027
α-helix7721
α-helix776-7827
α-helix789-7968
β-strand801118
β-strand804119
β-strand807119
α-helix809-8113
β-strand833118
α-helix844-87936
β-strand883-884220
β-strand890-891220
β-strand897-899320
β-strand907121
α-helix909-9113
α-helix921-93111
α-helix938-9403
α-helix942-95312
α-helix957-9593
α-helix963-98725
α-helix998-10025
α-helix1008-102417
β-strand1026121
α-helix1033-104210
α-helix1067-10759
β-strand1085-1087322
β-strand1089123
α-helix1095-110511
β-strand1108-1109224
β-strand1114-1121825
β-strand1126-1132725
α-helix1134-11407
α-helix1146-11527
α-helix1162-11643
β-strand1165-1166225
β-strand1172-1175425
α-helix1189-11957
α-helix1196-11983
β-strand1200-1202324
β-strand1209-1214622
β-strand1223-1228622
α-helix1232-12376
β-strand1241123
α-helix1243-12453
α-helix1251-12588
α-helix1260-127718
α-helix1284-129411
β-strand1297126
α-helix1305-13117
α-helix1316-13216
α-helix1326-13349
α-helix13371
β-strand1338-133922
α-helix1343-13486
α-helix1356-13583
β-strand1361-136441
α-helix1372-13776
Chain B: 48 helices, 88 β-strands
ElementResiduesLengthSheet
α-helix19-224
α-helix24-285
α-helix29-335
α-helix41-499
α-helix50-545
α-helix55-617
β-strand64-66327
β-strand74-81827
β-strand88128
β-strand94128
α-helix99-1046
β-strand110-1211227
β-strand123-127527
β-strand131-137727
α-helix138-1392
β-strand169-171329
β-strand174-178529
β-strand180-184530
α-helix1851
β-strand190-193431
β-strand199-202431
β-strand203-206432
β-strand211-214432
β-strand217133
β-strand224-225233
β-strand230134
β-strand234-235233
α-helix236-2427
α-helix248-2558
α-helix259-27214
α-helix280-2889
β-strand291134
α-helix307-3159
α-helix329-34719
β-strand360-363430
α-helix366-39126
α-helix399-4002
α-helix403-4053
α-helix409-42113
β-strand423135
β-strand426136
β-strand431136
β-strand434135
β-strand437-439329
α-helix440-4412
α-helix445-4517
β-strand454-456330
α-helix473-4753
β-strand479137
β-strand494-495230
β-strand496137
β-strand501-502238
α-helix509-5179
β-strand521139
α-helix528-5325
β-strand537-541539
β-strand544-549639
α-helix552-56413
β-strand573-577539
β-strand582-586539
β-strand592-598738
β-strand599140
β-strand604140
α-helix608-6169
α-helix621-6266
β-strand630-634538
α-helix637-6393
β-strand643-644238
α-helix647-6493
β-strand656-657238
α-helix661-6644
α-helix668-6714
α-helix675-6773
α-helix680-68910
β-strand693141
β-strand695142
β-strand708-712542
β-strand716143
β-strand720-721244
α-helix723-7275
α-helix730-7323
β-strand737-743745
β-strand755-758445
α-helix759-7646
β-strand769-7791142
β-strand781146
β-strand787146
β-strand789-790247
β-strand795-796248
β-strand801-802248
α-helix804-8063
β-strand809149
β-strand814150
β-strand815149
β-strand820-821242
β-strand826-828350
β-strand830-833447
β-strand851-853347
β-strand856-857250
β-strand864-8731042
α-helix8781
β-strand879-8891142
β-strand896-897251
β-strand905-906251
β-strand907-911545
α-helix913-9153
β-strand918152
β-strand927-929345
α-helix934-9374
α-helix940-95314
β-strand959-960244
α-helix969-97810
β-strand986-987245
β-strand990152
β-strand997152
α-helix9981
β-strand1002-1009845
β-strand1011151
β-strand1012141
α-helix1016-10194
β-strand1021-102339
β-strand1028153
β-strand1035153
β-strand104618
α-helix1051-10588
α-helix1061-10655
α-helix1066-10705
β-strand1074-1080754
β-strand1086-1087254
β-strand1088155
β-strand1091155
β-strand1092156
β-strand1097156
β-strand1101-1107754
α-helix1108-111912
β-strand1123-112862
Chain C: 10 helices, 23 β-strands
ElementResiduesLengthSheet
α-helix3-1210
β-strand13-15357
β-strand16158
β-strand21158
β-strand33116
α-helix42-487
β-strand50-57857
β-strand60-66757
α-helix70-8213
β-strand86-951059
α-helix103-1119
β-strand115160
β-strand140-145659
β-strand147-148261
α-helix159-1624
β-strand163-164261
β-strand167-168262
β-strand173-175359
α-helix181-1844
β-strand192160
β-strand200-201262
β-strand207-2171159
β-strand228-2371057
β-strand240-241263
β-strand246164
α-helix249-2557
β-strand262-266564
β-strand271-275564
α-helix278-2803
α-helix286-2883
β-strand297-298263
β-strand300-3121357
α-helix318-34326
Chain D: 8 helices, 1 β-strand
ElementResiduesLengthSheet
β-strand2-11101
α-helix13-2513
α-helix38-5316
α-helix63-7311
α-helix74-763
α-helix80-8910
α-helix97-1004
α-helix104-1074
α-helix110-12314
Chain E: 12 helices, 12 β-strands
ElementResiduesLengthSheet
α-helix5-2319
α-helix30-334
α-helix37-437
α-helix52-554
β-strand58165
β-strand62-63266
β-strand67-71566
β-strand72-75465
β-strand81-82267
α-helix84-9714
β-strand101-106665
β-strand109-110267
α-helix112-1209
β-strand126-131665
α-helix1461
β-strand147-150426
α-helix151-1522
α-helix153-16210
α-helix167-1693
α-helix1711
β-strand172-173226
α-helix178-1836
β-strand190-196726
β-strand202-209826
Chain F: 6 helices, 4 β-strands
ElementResiduesLengthSheet
β-strand56168
α-helix57-582
α-helix59-7416
α-helix77-793
α-helix89-9810
β-strand104-10961
α-helix1101
β-strand115-11951
α-helix120-1223
β-strand124168
Chain G: 5 helices, 13 β-strands
ElementResiduesLengthSheet
β-strand2-13121
α-helix15-173
α-helix22-3413
β-strand37-3931
β-strand43-59171
β-strand66-77121
α-helix79-802
β-strand83-87569
β-strand89-92469
β-strand97-101569
β-strand104-109669
α-helix111-1133
β-strand128-129270
β-strand139-140270
β-strand148-1571069
β-strand184-189669
β-strand196-197269
α-helix198-2003
Chain H: 1 helix, 10 β-strands
ElementResiduesLengthSheet
β-strand4-141171
β-strand25-32871
β-strand38-44771
β-strand55-61771
α-helix84-874
β-strand90-1011271
β-strand111-117771
β-strand118172
β-strand121172
β-strand123-128671
β-strand140-147871

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 RPC1Aprotein1390Homo sapiensO14802 (AlphaFold model)
DNA-directed RNA polymerase III subunit RPC2Bprotein1133Homo sapiensQ9NW08 (AlphaFold model)
DNA-directed RNA polymerases I and III subunit RPAC1Cprotein346Homo sapiensO15160 (AlphaFold model)
DNA-directed RNA polymerase III subunit RPC9Dprotein148Homo sapiensO75575 (AlphaFold model)
DNA-directed RNA polymerases I, II, and III subunit RPABC1Eprotein210Homo sapiensP19388
DNA-directed RNA polymerases I, II, and III subunit RPABC2Fprotein127Homo sapiensP61218
DNA-directed RNA polymerase III subunit RPC8Gprotein204Homo sapiensQ9Y535
DNA-directed RNA polymerases I, II, and III subunit RPABC3Hprotein150Homo sapiensP52434
DNA-directed RNA polymerase III subunit RPC10Iprotein108Homo sapiensQ9Y2Y1
DNA-directed RNA polymerases I, II, and III subunit RPABC5Jprotein67Homo sapiensP62875
DNA-directed RNA polymerases I and III subunit RPAC2Kprotein133Homo sapiensP0DPB6
DNA-directed RNA polymerases I, II, and III subunit RPABC4Lprotein58Homo sapiensP53803

5 more molecules are not listed.

Sequence of entity 1 (A), FASTA
>7A6H_1 DNA-directed RNA polymerase III subunit RPC1 (chains A)
MVKEQFRETDVAKKISHICFGMKSPEEMRQQAHIQVVSKNLYSQDNQHAPLLYGVLDHRM
GTSEKDRPCETCGKNLADCLGHYGYIDLELPCFHVGYFRAVIGILQMICKTCCHIMLSQE
EKKQFLDYLKRPGLTYLQKRGLKKKISDKCRKKNICHHCGAFNGTVKKCGLLKIIHEKYK
TNKKVVDPIVSNFLQSFETAIEHNKEVEPLLGRAQENLNPLVVLNLFKRIPAEDVPLLLM
NPEAGKPSDLILTRLLVPPLCIRPSVVSDLKSGTNEDDLTMKLTEIIFLNDVIKKHRISG
AKTQMIMEDWDFLQLQCALYINSELSGIPLNMAPKKWTRGFVQRLKGKQGRFRGNLSGKR
VDFSGRTVISPDPNLRIDEVAVPVHVAKILTFPEKVNKANINFLRKLVQNGPEVHPGANF
IQQRHTQMKRFLKYGNREKMAQELKYGDIVERHLIDGDVVLFNRQPSLHKLSIMAHLARV
KPHRTFRFNECVCTPYNADFDGDEMNLHLPQTEEAKAEALVLMGTKANLVTPRNGEPLIA
AIQDFLTGAYLLTLKDTFFDRAKACQIIASILVGKDEKIKVRLPPPTILKPVTLWTGKQI
FSVILRPSDDNPVRANLRTKGKQYCGKGEDLCANDSYVTIQNSELMSGSMDKGTLGSGSK
NNIFYILLRDWGQNEAADAMSRLARLAPVYLSNRGFSIGIGDVTPGQGLLKAKYELLNAG
YKKCDEYIEALNTGKLQQQPGCTAEETLEALILKELSVIRDHAGSACLRELDKSNSPLTM
ALCGSKGSFINISQMIACVGQQAISGSRVPDGFENRSLPHFEKHSKLPAAKGFVANSFYS
GLTPTEFFFHTMAGREGLVDTAVKTAETGYMQRRLVKSLEDLCSQYDLTVRSSTGDIIQF
IYGGDGLDPAAMEGKDEPLEFKRVLDNIKAVFPCPSEPALSKNELILTTESIMKKSEFLC
CQDSFLQEIKKFIKGVSEKIKKTRDKYGINDNGTTEPRVLYQLDRITPTQVEKFLETCRD
KYMRAQMEPGSAVGALCAQSIGEPGTQMTLKTFHFAGVASMNITLGVPRIKEIINASKAI
STPIITAQLDKDDDADYARLVKGRIEKTLLGEISEYIEEVFLPDDCFILVKLSLERIRLL
RLEVNAETVRYSICTSKLRVKPGDVAVHGEAVVCVTPRENSKSSMYYVLQFLKEDLPKVV
VQGIPEVSRAVIHIDEQSGKEKYKLLVEGDNLRAVMATHGVKGTRTTSNNTYEVEKTLGI
EAARTTIINEIQYTMVNHGMSIDRRHVMLLSDLMTYKGEVLGITRFGLAKMKESVLMLAS
FEKTADHLFDAAYFGQKDSVCGVSECIIMGIPMNIGTGLFKLLHKADRDPNPPKRPLIFD
TNEFHIPLVT
Sequence of entity 2 (B), FASTA
>7A6H_2 DNA-directed RNA polymerase III subunit RPC2 (chains B)
MDVLAEEFGNLTPEQLAAPIPTVEEKWRLLPAFLKVKGLVKQHIDSFNYFINVEIKKIMK
ANEKVTSDADPMWYLKYLNIYVGLPDVEESFNVTRPVSPHECRLRDMTYSAPITVDIEYT
RGSQRIIRNALPIGRMPIMLRSSNCVLTGKTPAEFAKLNECPLDPGGYFIVKGVEKVILI
QEQLSKNRIIVEADRKGAVGASVTSSTHEKKSRTNMAVKQGRFYLRHNTLSEDIPIVIIF
KAMGVESDQEIVQMIGTEEHVMAAFGPSLEECQKAQIFTQMQALKYIGNKVRRQRMWGGG
PKKTKIEEARELLASTILTHVPVKEFNFRAKCIYTAVMVRRVILAQGDNKVDDRDYYGNK
RLELAGQLLSLLFEDLFKKFNSEMKKIADQVIPKQRAAQFDVVKHMRQDQITNGMVNAIS
TGNWSLKRFKMDRQGVTQVLSRLSYISALGMMTRISSQFEKTRKVSGPRSLQPSQWGMLC
PSDTPEGEACGLVKNLALMTHITTDMEDGPIVKLASNLGVEDVNLLCGEELSYPNVFLVF
LNGNILGVIRDHKKLVNTFRLMRRAGYINEFVSISTNLTDRCVYISSDGGRLCRPYIIVK
KQKPAVTNKHMEELAQGYRNFEDFLHESLVEYLDVNEENDCNIALYEHTINKDTTHLEIE
PFTLLGVCAGLIPYPHHNQSPRNTYQCAMGKQAMGTIGYNQRNRIDTLMYLLAYPQKPMV
KTKTIELIEFEKLPAGQNATVAVMSYSGYDIEDALVLNKASLDRGFGRCLVYKNAKCTLK
RYTNQTFDKVMGPMLDAATRKPIWRHEILDADGICSPGEKVENKQVLVNKSMPTVTQIPL
EGSNVPQQPQYKDVPITYKGATDSYIEKVMISSNAEDAFLIKMLLRQTRRPEIGDKFSSR
HGQKGVCGLIVPQEDMPFCDSGICPDIIMNPHGFPSRMTVGKLIELLAGKAGVLDGRFHY
GTAFGGSKVKDVCEDLVRHGYNYLGKDYVTSGITGEPLEAYIYFGPVYYQKLKHMVLDKM
HARARGPRAVLTRQPTEGRSRDGGLRLGEMERDCLIGYGASMLLLERLMISSDAFEVDVC
GQCGLLGYSGWCHYCKSSCHVSSLRIPYACKLLFQELQSMNIIPRLKLSKYNE
Sequence of entity 3 (C), FASTA
>7A6H_3 DNA-directed RNA polymerases I and III subunit RPAC1 (chains C)
MAASQAVEEMRSRVVLGEFGVRNVHTTDFPGNYSGYDDAWDQDRFEKNFRVDVVHMDENS
LEFDMVGIDAAIANAFRRILLAEVPTMAVEKVLVYNNTSIVQDEILAHRLGLIPIHADPR
LFEYRNQGDEEGTEIDTLQFRLQVRCTRNPHAAKDSSDPNELYVNHKVYTRHMTWIPLGN
QADLFPEGTIRPVHDDILIAQLRPGQEIDLLMHCVKGIGKDHAKFSPVATASYRLLPDIT
LLEPVEGEAAEELSRCFSPGVIEVQEVQGKKVARVANPRLDTFSREIFRNEKLKKVVRLA
RVRDHYIFSVESTGVLPPDVLVSEAIKVLMGKCRRFLDELDAVQMD
Sequence of entity 4 (D), FASTA
>7A6H_4 DNA-directed RNA polymerase III subunit RPC9 (chains D)
MEVKDANSALLSNYEVFQLLTDLKEQRKESGKNKHSSGQQNLNTITYETLKYISKTPCRH
QSPEIVREFLTALKSHKLTKAEKLQLLNHRPVTAVEIQLMVEESEERLTEEQIEALLHTV
TSILPAEPEAEQKKNTNSNVAMDEEDPA
Sequence of entity 5 (E), FASTA
>7A6H_5 DNA-directed RNA polymerases I, II, and III subunit RPABC1 (chains E)
MDDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQSGDKPSEGRPRRTDLTV
LVAHNDDPTDQMFVFFPEEPKVGIKTIKVYCQRMQEENITRALIVVQQGMTPSAKQSLVD
MAPKYILEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRENQLPRIQAGDPVA
RYFGIKRGQVVKIIRPSETAGRYITYRLVQ
Sequence of entity 6 (F), FASTA
>7A6H_6 DNA-directed RNA polymerases I, II, and III subunit RPABC2 (chains F)
MSDNEDNFDGDDFDDVEEDEGLDDLENAEEEGQENVEILPSGERPQANQKRITTPYMTKY
ERARVLGTRALQIAMCAPVMVELEGETDPLLIAMKELKARKIPIIIRRYLPDGSYEDWGV
DELIITD
Sequence of entity 7 (G), FASTA
>7A6H_7 DNA-directed RNA polymerase III subunit RPC8 (chains G)
MFVLVEMVDTVRIPPWQFERKLNDSIAEELNKKLANKVVYNVGLCICLFDITKLEDAYVF
PGDGASHTKVHFRCVVFHPFLDEILIGKIKGCSPEGVHVSLGFFDDILIPPESLQQPAKF
DEAEQVWVWEYETEEGAHDLYMDTGEEIRFRVVDESFVDTSPTGPSSADATTSSEELPKK
EAPYTLVGSISEPGLGLLSWWTSN
Sequence of entity 8 (H), FASTA
>7A6H_8 DNA-directed RNA polymerases I, II, and III subunit RPABC3 (chains H)
MAGILFEDIFDVKDIDPEGKKFDRVSRLHCESESFKMDLILDVNIQIYPVDLGDKFRLVI
ASTLYEDGTLDDGEYNPTDDRPSRADQFEYVMYGKVYRIEGDETSTEAATRLSAYVSYGG
LLMRLQGDANNLHGFEVDSRVYLLMKKLAF
Sequence of entity 9 (I), FASTA
>7A6H_9 DNA-directed RNA polymerase III subunit RPC10 (chains I)
MLLFCPGCGNGLIVEEGQRCHRFSCNTCPYVHNITRKVTNRKYPKLKEVDDVLGGAAAWE
NVDSTAESCPKCEHPRAYFMQLQTRSADEPMTTFYKCCNAQCGHRWRD
Sequence of entity 10 (J), FASTA
>7A6H_10 DNA-directed RNA polymerases I, II, and III subunit RPABC5 (chains J)
MIIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLAHVDLIEKLL
NYAPLEK
Sequence of entity 11 (K), FASTA
>7A6H_11 DNA-directed RNA polymerases I and III subunit RPAC2 (chains K)
MEEDQELERKISGLKTSMAEGERKTALEMVQAAGTDRHCVTFVLHEEDHTLGNSLRYMIM
KNPEVEFCGYTTTHPSESKINLRIQTRGTLPAVEPFQRGLNELMNVCQHVLDKFEASIKD
YKDQKASRNESTF
Sequence of entity 12 (L), FASTA
>7A6H_12 DNA-directed RNA polymerases I, II, and III subunit RPABC4 (chains L)
MDTQKDVQPPKQQPMIYICGECHTENEIKSRDPIRCRECGYRIMYKKRTKRLVVFDAR

Ligands and cofactors

IDNameFormulaCopies
SF4Iron/sulfur clusterFe4 S41
MGMagnesium ionMg1
ZNZinc ionZn7

Primary citation

Cryo-EM structures of human RNA polymerase III in its unbound and transcribing states. Girbig, M., Misiaszek, A.D., Vorlander, M.K. et al. Nat Struct Mol Biol (2021) 28:210-219. DOI 10.1038/s41594-020-00555-5 · PubMed

Other PDB entries of the same protein (UniProt O14802 (AlphaFold model), which also has an AlphaFold model), best resolution first:

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