7AE3: Human RNA Polymerase III elongation complex 3

Cryo-EM structure of human RNA Polymerase III elongation complex 3. Determined by electron microscopy at 3.1 Å resolution. Released 3 Feb 2021.

Method
Electron microscopy
Resolution
3.1 Å
Organisms
Homo sapiens, synthetic construct
Chains
20
Atoms
42,525
Mol. weight
743.6 kDa
Ligands
MG, SF4, ZN
Released
3 Feb 2021

Explore 7AE3 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

7AE3 contains 248 α-helices and 290 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: 73 helices, 62 β-strands

ElementResiduesLengthSheet
β-strand4-521
β-strand1212
β-strand13-2193
α-helix28-314
β-strand34-3524
β-strand4215
β-strand5015
β-strand84-93104
α-helix98-1058
β-strand10816
β-strand11516
α-helix119-12810
α-helix136-15015
β-strand15517
β-strand16217
β-strand166-16838
β-strand174-17638
α-helix186-1872
α-helix188-1936
α-helix198-2036
α-helix207-2104
α-helix211-2133
β-strand216-21838
α-helix223-2275
α-helix232-2343
α-helix236-2383
α-helix247-2493
β-strand251-25774
α-helix258-2592
α-helix260-2623
α-helix278-29619
α-helix303-31614
α-helix352-3565
β-strand359-36029
β-strand364-371810
β-strand379-383510
α-helix384-3874
β-strand391-395511
α-helix3961
α-helix401-41010
β-strand418-422511
β-strand429-431311
α-helix437-4426
β-strand449-453511
β-strand459-464610
α-helix470-4723
β-strand473-481910
β-strand486-488310
α-helix490-4923
α-helix493-4964
β-strand504-508510
α-helix513-5219
β-strand524110
β-strand530112
β-strand537112
β-strand541113
α-helix547-5526
β-strand558-559214
α-helix561-5688
α-helix569-5713
α-helix574-5763
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-helix663-6719
α-helix673-69422
α-helix700-7023
α-helix707-73226
α-helix738-7392
α-helix744-76724
α-helix771-7722
α-helix776-7827
α-helix789-7957
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-helix942-95211
α-helix957-9604
α-helix963-98624
α-helix998-10025
α-helix1008-102316
β-strand1026121
α-helix1027-10282
α-helix1033-104210
α-helix1043-10464
α-helix1067-10759
β-strand1085-1087322
β-strand1088-1089223
α-helix1095-11039
β-strand1108-1109224
β-strand1114-1121825
β-strand1126-1132725
α-helix1134-11407
α-helix1146-11527
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-strand1241-1242223
α-helix1243-12453
α-helix1251-12588
α-helix1260-127718
α-helix1284-129411
β-strand1297126
α-helix1305-13117
α-helix1315-13195
α-helix1324-133310
β-strand1337-133933
α-helix1343-13497
α-helix1356-13583
β-strand1361-136441
α-helix1372-13776
α-helix1382-13843
Chain B: 55 helices, 86 β-strands
ElementResiduesLengthSheet
α-helix19-213
α-helix24-285
α-helix29-335
α-helix41-499
α-helix50-545
α-helix55-617
β-strand64-66327
β-strand74-81827
β-strand86-88328
β-strand94-96328
α-helix99-1046
β-strand110-1211227
β-strand123-1371527
α-helix138-1392
α-helix156-1583
β-strand169-171329
β-strand174-178529
α-helix1791
β-strand180-184530
α-helix1851
β-strand190-193431
β-strand199-206831
β-strand211-216631
β-strand217132
β-strand224-225232
β-strand230133
α-helix2331
β-strand234-235232
α-helix236-2427
α-helix248-2558
α-helix259-27214
α-helix280-2889
β-strand291133
α-helix307-3159
α-helix329-34719
α-helix351-3533
α-helix357-3593
β-strand360-363430
α-helix365-39127
α-helix402-4054
α-helix408-4103
α-helix411-42010
β-strand423134
β-strand426135
β-strand431135
β-strand434134
β-strand437-439329
α-helix440-4412
α-helix445-4517
β-strand454-456330
α-helix473-4753
β-strand479136
β-strand494-495230
β-strand496136
β-strand501-502237
α-helix510-5156
α-helix5201
β-strand521138
α-helix5221
α-helix528-5325
β-strand537-541538
β-strand544-549638
α-helix552-56514
β-strand573-577538
β-strand582-586538
β-strand592-598737
β-strand599139
β-strand604139
α-helix608-6169
α-helix621-6266
β-strand630-634537
β-strand643-644237
α-helix647-6493
β-strand656-657237
α-helix661-6644
α-helix668-6714
α-helix680-68910
α-helix690-6923
β-strand693140
β-strand695141
β-strand708-712541
β-strand716142
β-strand720-721243
α-helix723-7275
α-helix730-7323
β-strand737-743744
β-strand755-758444
α-helix759-7624
β-strand769-7791141
β-strand781145
β-strand787145
β-strand789-790246
β-strand795-796247
β-strand801-802247
α-helix804-8063
β-strand809148
β-strand814149
β-strand815148
α-helix8161
β-strand820-821241
β-strand826-828349
β-strand830-833446
β-strand851-853346
β-strand856-857249
β-strand864-8731041
β-strand879-8891141
β-strand896-897250
β-strand905-906250
β-strand907-911544
α-helix913-9153
β-strand918151
β-strand927-929344
α-helix933-9375
α-helix940-95314
β-strand959-960243
α-helix969-97810
β-strand986-987244
β-strand990151
β-strand997151
α-helix9981
β-strand1002-1009844
β-strand1011150
β-strand1012140
α-helix1016-10183
β-strand1021-1023310
β-strand1028152
β-strand1035152
α-helix1039-10413
β-strand1046-104729
α-helix1049-10579
α-helix1062-10654
α-helix1066-10705
β-strand1074-108072
β-strand1086-108722
β-strand1088153
β-strand1091153
β-strand1092154
β-strand1097154
β-strand1101-110772
α-helix1108-11169
β-strand1123-113083
Chain C: 11 helices, 27 β-strands
ElementResiduesLengthSheet
α-helix3-108
β-strand13155
β-strand16156
β-strand21156
β-strand33116
α-helix42-487
β-strand50-57855
β-strand60-66755
α-helix70-8213
β-strand86-94957
α-helix103-1119
β-strand115158
α-helix124-1263
β-strand138157
β-strand140-142359
β-strand143-145360
β-strand147-148261
α-helix159-1624
β-strand163-164261
β-strand167-168262
α-helix170-1723
β-strand173-175359
α-helix181-1844
β-strand192158
β-strand200-201262
β-strand207-209360
β-strand210-217857
β-strand228-232555
β-strand235-237355
β-strand240-241263
β-strand246164
α-helix249-2535
β-strand262-266564
β-strand271-275564
α-helix278-2803
β-strand297-298263
β-strand301-3121255
α-helix318-34326
Chain D: 8 helices, 2 β-strands
ElementResiduesLengthSheet
β-strand2-541
β-strand10-1121
α-helix13-2614
α-helix38-5316
α-helix63-7210
α-helix74-763
α-helix80-889
α-helix97-1004
α-helix104-1074
α-helix110-12314
Chain E: 10 helices, 13 β-strands
ElementResiduesLengthSheet
α-helix6-2318
β-strand26165
α-helix30-334
α-helix37-437
β-strand58166
β-strand62-63265
β-strand67-71565
β-strand72-75466
β-strand81-82267
α-helix84-9714
β-strand101-106666
β-strand109-110267
α-helix112-1209
β-strand126-131666
α-helix1461
β-strand147-150426
α-helix151-1522
α-helix153-16210
α-helix167-1693
β-strand172-173226
α-helix178-1836
β-strand190-196726
β-strand202-209826
Chain F: 5 helices, 4 β-strands
ElementResiduesLengthSheet
β-strand56168
α-helix57-582
α-helix59-7416
α-helix77-793
α-helix89-9810
β-strand104-10961
β-strand115-11951
α-helix120-1223
β-strand124168
Chain G: 4 helices, 12 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-strand84-931069
β-strand96-101669
β-strand104-109669
α-helix111-1133
β-strand148-1571069
β-strand184-189669
β-strand193170
β-strand195170
β-strand196-197269
Chain H: 1 helix, 11 β-strands
ElementResiduesLengthSheet
β-strand4-9615
β-strand12-14315
β-strand25-31715
β-strand38-44715
β-strand56-61615
α-helix84-874
β-strand90-1011215
β-strand111-117715
β-strand118171
β-strand121171
β-strand123-128615
β-strand139-147915

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

8 more molecules are not listed.

Sequence of entity 1 (A), FASTA
>7AE3_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
>7AE3_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
>7AE3_3 DNA-directed RNA polymerases I and III subunit RPAC1 (chains C)
MAASQAVEEMRSRVVLGEFGVRNVHTTDFPGNYSGYDDAWDQDRFEKNFRVDVVHMDENS
LEFDMVGIDAAIANAFRRILLAEVPTMAVEKVLVYNNTSIVQDEILAHRLGLIPIHADPR
LFEYRNQGDEEGTEIDTLQFRLQVRCTRNPHAAKDSSDPNELYVNHKVYTRHMTWIPLGN
QADLFPEGTIRPVHDDILIAQLRPGQEIDLLMHCVKGIGKDHAKFSPVATASYRLLPDIT
LLEPVEGEAAEELSRCFSPGVIEVQEVQGKKVARVANPRLDTFSREIFRNEKLKKVVRLA
RVRDHYIFSVESTGVLPPDVLVSEAIKVLMGKCRRFLDELDAVQMD
Sequence of entity 4 (D), FASTA
>7AE3_4 DNA-directed RNA polymerase III subunit RPC9 (chains D)
MEVKDANSALLSNYEVFQLLTDLKEQRKESGKNKHSSGQQNLNTITYETLKYISKTPCRH
QSPEIVREFLTALKSHKLTKAEKLQLLNHRPVTAVEIQLMVEESEERLTEEQIEALLHTV
TSILPAEPEAEQKKNTNSNVAMDEEDPA
Sequence of entity 5 (E), FASTA
>7AE3_5 DNA-directed RNA polymerases I, II, and III subunit RPABC1 (chains E)
MDDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQSGDKPSEGRPRRTDLTV
LVAHNDDPTDQMFVFFPEEPKVGIKTIKVYCQRMQEENITRALIVVQQGMTPSAKQSLVD
MAPKYILEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRENQLPRIQAGDPVA
RYFGIKRGQVVKIIRPSETAGRYITYRLVQ
Sequence of entity 6 (F), FASTA
>7AE3_6 DNA-directed RNA polymerases I, II, and III subunit RPABC2 (chains F)
MSDNEDNFDGDDFDDVEEDEGLDDLENAEEEGQENVEILPSGERPQANQKRITTPYMTKY
ERARVLGTRALQIAMCAPVMVELEGETDPLLIAMKELKARKIPIIIRRYLPDGSYEDWGV
DELIITD
Sequence of entity 7 (G), FASTA
>7AE3_7 DNA-directed RNA polymerase III subunit RPC8 (chains G)
MFVLVEMVDTVRIPPWQFERKLNDSIAEELNKKLANKVVYNVGLCICLFDITKLEDAYVF
PGDGASHTKVHFRCVVFHPFLDEILIGKIKGCSPEGVHVSLGFFDDILIPPESLQQPAKF
DEAEQVWVWEYETEEGAHDLYMDTGEEIRFRVVDESFVDTSPTGPSSADATTSSEELPKK
EAPYTLVGSISEPGLGLLSWWTSN
Sequence of entity 8 (H), FASTA
>7AE3_8 DNA-directed RNA polymerases I, II, and III subunit RPABC3 (chains H)
MAGILFEDIFDVKDIDPEGKKFDRVSRLHCESESFKMDLILDVNIQIYPVDLGDKFRLVI
ASTLYEDGTLDDGEYNPTDDRPSRADQFEYVMYGKVYRIEGDETSTEAATRLSAYVSYGG
LLMRLQGDANNLHGFEVDSRVYLLMKKLAF
Sequence of entity 9 (I), FASTA
>7AE3_9 DNA-directed RNA polymerase III subunit RPC10 (chains I)
MLLFCPGCGNGLIVEEGQRCHRFSCNTCPYVHNITRKVTNRKYPKLKEVDDVLGGAAAWE
NVDSTAESCPKCEHPRAYFMQLQTRSADEPMTTFYKCCNAQCGHRWRD
Sequence of entity 10 (J), FASTA
>7AE3_10 DNA-directed RNA polymerases I, II, and III subunit RPABC5 (chains J)
MIIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLAHVDLIEKLL
NYAPLEK
Sequence of entity 11 (K), FASTA
>7AE3_11 DNA-directed RNA polymerases I and III subunit RPAC2 (chains K)
MEEDQELERKISGLKTSMAEGERKTALEMVQAAGTDRHCVTFVLHEEDHTLGNSLRYMIM
KNPEVEFCGYTTTHPSESKINLRIQTRGTLPAVEPFQRGLNELMNVCQHVLDKFEASIKD
YKDQKASRNESTF
Sequence of entity 12 (L), FASTA
>7AE3_12 DNA-directed RNA polymerases I, II, and III subunit RPABC4 (chains L)
MDTQKDVQPPKQQPMIYICGECHTENEIKSRDPIRCRECGYRIMYKKRTKRLVVFDAR

Ligands and cofactors

IDNameFormulaCopies
MGMagnesium ionMg1
SF4Iron/sulfur clusterFe4 S41
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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