7AEA: Human RNA Polymerase III elongation complex 2

Cryo-EM structure of human RNA Polymerase III elongation complex 2. Determined by electron microscopy at 3.4 Å resolution. Released 3 Feb 2021.

Method
Electron microscopy
Resolution
3.4 Å
Organisms
Homo sapiens, synthetic construct
Chains
20
Atoms
42,422
Mol. weight
743.6 kDa
Ligands
ZN, SF4, MG
Released
3 Feb 2021

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

Secondary structure: helices and β-sheets

7AEA contains 238 α-helices and 297 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: 72 helices, 66 β-strands

ElementResiduesLengthSheet
β-strand4-521
β-strand1212
β-strand14-1963
α-helix28-314
β-strand34-3524
β-strand3815
α-helix49-513
β-strand5415
β-strand84-93104
α-helix98-1058
β-strand10816
β-strand11516
α-helix119-12810
α-helix137-15014
β-strand15517
β-strand16217
β-strand166-16838
β-strand174-17638
α-helix185-1873
α-helix188-1958
α-helix198-2036
α-helix207-2104
β-strand21818
α-helix220-2278
α-helix236-2383
α-helix247-2493
β-strand251-25774
α-helix278-29821
α-helix303-32119
α-helix3511
α-helix352-3565
β-strand36019
β-strand364-368510
β-strand369-371311
β-strand379-380210
β-strand381111
β-strand383112
α-helix384-3874
β-strand391-395513
α-helix401-41010
β-strand418-422513
β-strand430-431213
α-helix437-4404
β-strand449-453513
α-helix4541
β-strand459-463510
α-helix470-4723
β-strand473-478610
β-strand481112
β-strand486-488311
α-helix490-4923
α-helix493-4964
β-strand504-508510
α-helix513-5208
β-strand524110
β-strand530114
β-strand537114
β-strand541115
α-helix547-5526
β-strand558-559216
α-helix561-5688
α-helix569-5713
α-helix583-5864
β-strand588117
β-strand592118
β-strand594117
β-strand595-596216
α-helix597-6059
β-strand616-620519
β-strand637-641519
β-strand645-647319
α-helix652-6554
β-strand656115
α-helix663-6708
α-helix673-69422
β-strand697120
α-helix700-7023
α-helix712-73221
α-helix738-7392
α-helix744-76421
α-helix771-7722
α-helix776-7827
α-helix789-7957
β-strand801121
β-strand804122
β-strand807122
α-helix829-8313
β-strand833121
α-helix844-86320
α-helix865-87915
β-strand883-884223
β-strand890-891223
β-strand897-899323
α-helix902-9043
β-strand907124
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-strand1026124
α-helix1033-104715
α-helix1067-10759
β-strand1085-1089525
α-helix1095-110511
β-strand1108-1109226
α-helix1110-11123
β-strand1114-1121827
β-strand1126-1132727
α-helix1134-11407
α-helix1146-11527
α-helix1162-11643
β-strand1165-1166227
β-strand1172-1175427
α-helix1189-11957
α-helix1196-11983
β-strand1200-1202326
β-strand1209-1214625
β-strand1223-1228625
α-helix1232-12354
β-strand1241-1242225
α-helix1243-12453
α-helix1251-12577
α-helix1260-127617
α-helix1284-129411
β-strand1297128
α-helix1308-13114
α-helix1315-13195
α-helix1324-133310
β-strand1337-133933
α-helix1344-13496
α-helix1351-13533
α-helix1356-13583
β-strand1361-136441
α-helix1375-13773
Chain B: 50 helices, 97 β-strands
ElementResiduesLengthSheet
α-helix19-213
α-helix25-284
α-helix29-335
α-helix41-499
α-helix50-545
α-helix55-606
β-strand64-66329
β-strand74-80729
β-strand86-88330
β-strand94-96330
α-helix99-1046
β-strand110-1211229
β-strand123-127529
β-strand131-137729
α-helix138-1392
β-strand169-171331
β-strand174-178531
α-helix1791
β-strand180132
β-strand181-184433
α-helix1851
β-strand190-193434
β-strand199-204634
β-strand213-216434
β-strand217135
β-strand224-225235
β-strand230136
α-helix2331
β-strand234-235235
α-helix236-2427
α-helix248-2558
α-helix259-27214
α-helix280-2889
β-strand291136
α-helix292-2932
α-helix307-3159
α-helix329-34719
α-helix351-3533
β-strand360-363433
α-helix365-39127
α-helix402-4054
α-helix408-4103
α-helix412-42110
β-strand423137
β-strand426138
β-strand431138
β-strand434137
β-strand437-439331
α-helix440-4412
α-helix445-4517
β-strand454-456332
α-helix473-4753
β-strand479139
β-strand490132
β-strand493-495332
β-strand496139
β-strand501-502240
α-helix509-5157
β-strand521141
α-helix528-5325
β-strand537-541541
β-strand544-549641
α-helix552-56413
β-strand573-574241
β-strand577141
β-strand582-586541
β-strand592-598740
β-strand599142
β-strand604142
α-helix608-6169
α-helix621-6266
β-strand630-634540
α-helix637-6393
β-strand643-644240
α-helix647-6493
β-strand656-657240
α-helix661-6633
α-helix668-6703
α-helix680-68910
β-strand693143
β-strand695144
β-strand708-712544
β-strand716145
β-strand721146
α-helix723-7275
α-helix730-7323
β-strand737-741547
β-strand743148
β-strand744120
β-strand755-758449
α-helix759-7624
β-strand769-773544
β-strand774-779650
β-strand781151
β-strand787151
β-strand789-790252
β-strand795153
β-strand802153
α-helix804-8063
β-strand809154
β-strand814155
β-strand815154
α-helix8161
β-strand821156
β-strand826-828355
β-strand830-833452
β-strand851-853352
β-strand856-857255
β-strand864156
β-strand865-873950
β-strand879-886850
β-strand887-889344
β-strand896-897257
β-strand905-906257
β-strand907-911549
β-strand918158
β-strand928149
β-strand929148
α-helix941-95313
β-strand960146
α-helix973-9786
β-strand986-987259
β-strand990158
β-strand997158
β-strand1002-1003259
β-strand1005-1009547
β-strand1011157
β-strand1012143
β-strand1021-1023310
β-strand1028160
β-strand1035160
α-helix1039-10413
β-strand104619
α-helix1052-10576
α-helix1062-10654
α-helix1066-10705
α-helix1071-10733
β-strand1074-108072
β-strand1086-108722
β-strand1088161
β-strand1091161
β-strand1092162
β-strand1097162
β-strand1101-110772
α-helix1108-11114
α-helix1113-11197
β-strand1125-112953
Chain C: 10 helices, 25 β-strands
ElementResiduesLengthSheet
α-helix3-108
β-strand13163
β-strand16164
β-strand21164
β-strand33118
α-helix42-487
β-strand50-57863
β-strand60-66763
α-helix70-8213
β-strand86-94965
α-helix103-1119
β-strand115166
α-helix124-1263
β-strand140-142365
β-strand143-145367
β-strand147-148268
α-helix159-1624
β-strand163-164268
β-strand167-168269
α-helix170-1723
β-strand173-175365
α-helix181-1844
β-strand192166
β-strand200-201269
β-strand207-209367
β-strand212-217665
β-strand228-2371063
β-strand240-241270
β-strand246171
β-strand262-266571
β-strand271-275571
α-helix278-2803
β-strand297-298270
β-strand301-3121263
α-helix318-33720
Chain D: 8 helices, 2 β-strands
ElementResiduesLengthSheet
β-strand2-541
β-strand1111
α-helix15-2612
α-helix40-5314
α-helix63-7210
α-helix73-764
α-helix80-889
α-helix97-1004
α-helix104-1074
α-helix110-12112
Chain E: 9 helices, 14 β-strands
ElementResiduesLengthSheet
α-helix5-2420
β-strand26172
α-helix30-323
α-helix37-404
β-strand58173
β-strand62174
β-strand63172
β-strand71174
β-strand72-75473
β-strand81-82275
α-helix84-9714
β-strand101-106673
β-strand109-110275
α-helix112-1198
β-strand126-131673
β-strand147-150428
α-helix151-1522
α-helix153-16210
α-helix167-1693
β-strand172-173228
α-helix178-1836
β-strand190-196728
β-strand202-209828
Chain F: 3 helices, 4 β-strands
ElementResiduesLengthSheet
β-strand56176
α-helix59-7416
α-helix77-793
α-helix89-9810
β-strand104-10961
β-strand115-11951
β-strand124176
Chain G: 4 helices, 12 β-strands
ElementResiduesLengthSheet
β-strand2-13121
α-helix15-173
α-helix23-3412
β-strand37-3931
β-strand43-59171
β-strand66-77121
α-helix79-802
β-strand84-931077
β-strand96-101677
β-strand104-109677
α-helix111-1133
β-strand128-129278
β-strand139-140278
β-strand148-1571077
β-strand184-189677
β-strand196-197277
Chain H: 1 helix, 8 β-strands
ElementResiduesLengthSheet
β-strand4-141179
β-strand25-32879
β-strand38-44779
β-strand55-61779
α-helix84-874
β-strand90-1011279
β-strand111-117779
β-strand122-128779
β-strand139-147979

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
>7AEA_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
>7AEA_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
>7AEA_3 DNA-directed RNA polymerases I and III subunit RPAC1 (chains C)
MAASQAVEEMRSRVVLGEFGVRNVHTTDFPGNYSGYDDAWDQDRFEKNFRVDVVHMDENS
LEFDMVGIDAAIANAFRRILLAEVPTMAVEKVLVYNNTSIVQDEILAHRLGLIPIHADPR
LFEYRNQGDEEGTEIDTLQFRLQVRCTRNPHAAKDSSDPNELYVNHKVYTRHMTWIPLGN
QADLFPEGTIRPVHDDILIAQLRPGQEIDLLMHCVKGIGKDHAKFSPVATASYRLLPDIT
LLEPVEGEAAEELSRCFSPGVIEVQEVQGKKVARVANPRLDTFSREIFRNEKLKKVVRLA
RVRDHYIFSVESTGVLPPDVLVSEAIKVLMGKCRRFLDELDAVQMD
Sequence of entity 4 (D), FASTA
>7AEA_4 DNA-directed RNA polymerase III subunit RPC9 (chains D)
MEVKDANSALLSNYEVFQLLTDLKEQRKESGKNKHSSGQQNLNTITYETLKYISKTPCRH
QSPEIVREFLTALKSHKLTKAEKLQLLNHRPVTAVEIQLMVEESEERLTEEQIEALLHTV
TSILPAEPEAEQKKNTNSNVAMDEEDPA
Sequence of entity 5 (E), FASTA
>7AEA_5 DNA-directed RNA polymerases I, II, and III subunit RPABC1 (chains E)
MDDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQSGDKPSEGRPRRTDLTV
LVAHNDDPTDQMFVFFPEEPKVGIKTIKVYCQRMQEENITRALIVVQQGMTPSAKQSLVD
MAPKYILEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRENQLPRIQAGDPVA
RYFGIKRGQVVKIIRPSETAGRYITYRLVQ
Sequence of entity 6 (F), FASTA
>7AEA_6 DNA-directed RNA polymerases I, II, and III subunit RPABC2 (chains F)
MSDNEDNFDGDDFDDVEEDEGLDDLENAEEEGQENVEILPSGERPQANQKRITTPYMTKY
ERARVLGTRALQIAMCAPVMVELEGETDPLLIAMKELKARKIPIIIRRYLPDGSYEDWGV
DELIITD
Sequence of entity 7 (G), FASTA
>7AEA_7 DNA-directed RNA polymerase III subunit RPC8 (chains G)
MFVLVEMVDTVRIPPWQFERKLNDSIAEELNKKLANKVVYNVGLCICLFDITKLEDAYVF
PGDGASHTKVHFRCVVFHPFLDEILIGKIKGCSPEGVHVSLGFFDDILIPPESLQQPAKF
DEAEQVWVWEYETEEGAHDLYMDTGEEIRFRVVDESFVDTSPTGPSSADATTSSEELPKK
EAPYTLVGSISEPGLGLLSWWTSN
Sequence of entity 8 (H), FASTA
>7AEA_8 DNA-directed RNA polymerases I, II, and III subunit RPABC3 (chains H)
MAGILFEDIFDVKDIDPEGKKFDRVSRLHCESESFKMDLILDVNIQIYPVDLGDKFRLVI
ASTLYEDGTLDDGEYNPTDDRPSRADQFEYVMYGKVYRIEGDETSTEAATRLSAYVSYGG
LLMRLQGDANNLHGFEVDSRVYLLMKKLAF
Sequence of entity 9 (I), FASTA
>7AEA_9 DNA-directed RNA polymerase III subunit RPC10 (chains I)
MLLFCPGCGNGLIVEEGQRCHRFSCNTCPYVHNITRKVTNRKYPKLKEVDDVLGGAAAWE
NVDSTAESCPKCEHPRAYFMQLQTRSADEPMTTFYKCCNAQCGHRWRD
Sequence of entity 10 (J), FASTA
>7AEA_10 DNA-directed RNA polymerases I, II, and III subunit RPABC5 (chains J)
MIIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLAHVDLIEKLL
NYAPLEK
Sequence of entity 11 (K), FASTA
>7AEA_11 DNA-directed RNA polymerases I and III subunit RPAC2 (chains K)
MEEDQELERKISGLKTSMAEGERKTALEMVQAAGTDRHCVTFVLHEEDHTLGNSLRYMIM
KNPEVEFCGYTTTHPSESKINLRIQTRGTLPAVEPFQRGLNELMNVCQHVLDKFEASIKD
YKDQKASRNESTF
Sequence of entity 12 (L), FASTA
>7AEA_12 DNA-directed RNA polymerases I, II, and III subunit RPABC4 (chains L)
MDTQKDVQPPKQQPMIYICGECHTENEIKSRDPIRCRECGYRIMYKKRTKRLVVFDAR

Ligands and cofactors

IDNameFormulaCopies
ZNZinc ionZn7
SF4Iron/sulfur clusterFe4 S41
MGMagnesium ionMg1

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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