8A43: Human RNA polymerase I

Human RNA polymerase I. Determined by electron microscopy at 4.09 Å resolution. Released 31 Aug 2022.

Method
Electron microscopy
Resolution
4.09 Å
Organism
Homo sapiens
Chains
12
Atoms
31,109
Mol. weight
565.23 kDa
Released
31 Aug 2022

Explore 8A43 in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

8A43 contains 165 α-helices and 199 β-strands across 12 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: 79 helices, 52 β-strands

ElementResiduesLengthSheet
α-helix22-276
β-strand3211
β-strand3512
β-strand4912
α-helix53-553
β-strand8011
β-strand8113
β-strand87-8824
α-helix93-1019
β-strand10315
β-strand11015
α-helix114-12714
α-helix133-1375
α-helix160-17011
α-helix182-20019
β-strand215-21846
β-strand222-22546
α-helix230-2356
β-strand254-25526
α-helix256-2572
α-helix258-27922
α-helix294-2963
β-strand298-29924
β-strand30213
α-helix303-3053
α-helix311-3133
β-strand31517
β-strand31817
α-helix324-34522
α-helix384-40219
α-helix413-4153
α-helix427-4304
β-strand440-44458
β-strand445-44739
β-strand455-45848
α-helix4591
α-helix460-4656
β-strand467-468210
β-strand471111
α-helix477-48610
β-strand496-498311
β-strand504-506311
α-helix512-52211
β-strand537-539311
β-strand540-541210
α-helix5421
β-strand547-54938
α-helix5551
α-helix558-5603
β-strand563-56868
β-strand575-57739
α-helix580-5845
β-strand593-59758
α-helix602-6065
α-helix607-6115
β-strand619-620212
β-strand625-626212
α-helix632-6343
α-helix636-6416
α-helix650-65910
α-helix684-69512
α-helix751-7544
α-helix761-7699
α-helix772-78716
α-helix8031
β-strand804113
α-helix8051
α-helix808-8169
α-helix820-8223
α-helix823-8319
α-helix842-85110
α-helix856-86914
α-helix873-8764
β-strand885113
α-helix895-8984
α-helix910-9134
β-strand917-918214
β-strand921115
β-strand924115
α-helix9251
α-helix9271
α-helix945-9473
β-strand950-951214
α-helix963-99230
β-strand1000116
β-strand1001117
β-strand1007117
β-strand1008118
β-strand1014118
α-helix1029-10324
α-helix1037-10404
α-helix1044-10496
α-helix1064-107815
α-helix1090-110213
α-helix1115-112612
α-helix1129-11379
α-helix11411
α-helix1143-11453
α-helix1146-11494
α-helix1161-117919
α-helix1191-120313
α-helix1205-12062
β-strand1210116
α-helix1211-122515
α-helix1244-12485
α-helix1249-12546
β-strand1265-1267319
α-helix1268-12692
α-helix1275-128410
β-strand1287-1289320
β-strand1294-1300721
β-strand1314-1321821
α-helix1324-13318
α-helix1337-136125
α-helix1496-150813
β-strand1514-1516321
β-strand1524-1530721
α-helix1536-15372
α-helix1540-15489
β-strand1552-1555420
β-strand1563-1564219
β-strand1577-1579319
α-helix1585-15884
α-helix1607-16126
α-helix1615-163016
α-helix1641-16488
α-helix1662-16643
α-helix1668-16725
α-helix1677-168711
α-helix1696-17027
β-strand1710122
Chain B: 47 helices, 67 β-strands
ElementResiduesLengthSheet
α-helix5-73
α-helix34-374
α-helix40-489
α-helix49-535
α-helix54-563
α-helix62-632
β-strand76-83823
α-helix100-1056
β-strand113-119723
β-strand129-133523
α-helix153-1586
β-strand170-172324
β-strand175-179524
α-helix180-1812
β-strand182-185425
β-strand191-192226
α-helix197-1993
β-strand205127
β-strand210-211226
β-strand213-215328
β-strand221-223328
β-strand226126
β-strand229127
β-strand235-239529
β-strand244-248529
α-helix249-2557
α-helix262-2676
α-helix278-28811
α-helix297-31216
α-helix320-33112
α-helix334-3363
α-helix340-35718
β-strand372-375425
α-helix377-40529
α-helix416-4194
α-helix427-4359
β-strand454-456324
α-helix457-4582
α-helix463-4686
α-helix476-4783
α-helix484-4863
β-strand494130
β-strand497130
α-helix530-5356
α-helix5391
β-strand540131
α-helix5411
β-strand554-557431
β-strand562-566531
α-helix571-58313
β-strand594-598532
α-helix607-6082
β-strand609-613532
β-strand620-625633
β-strand631-635533
α-helix636-6394
α-helix648-6503
β-strand658-659233
α-helix663-6664
α-helix670-6723
α-helix682-69110
α-helix692-6943
β-strand695134
β-strand710-714535
β-strand723136
α-helix725-7273
α-helix732-7343
β-strand739137
β-strand742-744338
β-strand757-760438
α-helix762-7654
β-strand771-775535
β-strand779139
β-strand791140
α-helix813-8142
β-strand818-819241
β-strand824-826342
β-strand829140
β-strand836140
β-strand839-840242
β-strand847-849341
β-strand854139
β-strand867139
β-strand871-872241
β-strand873-875335
β-strand883-884243
β-strand893-897538
β-strand904144
β-strand913-914238
α-helix917-9193
α-helix927-94115
α-helix944-9452
β-strand946136
α-helix958-96912
β-strand976-977245
β-strand980144
β-strand987144
β-strand992-993245
β-strand994-996338
β-strand999137
β-strand1000-1001243
β-strand1002134
β-strand1011-101338
β-strand1018146
β-strand1025146
α-helix1039-104810
β-strand1050122
α-helix1052-10543
α-helix1055-10628
β-strand1066-1070547
β-strand1080148
β-strand1097148
β-strand1107-1111547
α-helix1114-112512
Chain C: 11 helices, 20 β-strands
ElementResiduesLengthSheet
α-helix42-465
β-strand52-55449
β-strand61150
β-strand62-64349
α-helix70-8314
β-strand86-89451
β-strand91-94452
α-helix103-1119
α-helix113-1142
β-strand115153
α-helix119-1213
α-helix124-1263
β-strand140-143452
β-strand147154
α-helix159-1624
β-strand164154
β-strand173-175352
α-helix181-1844
β-strand192153
β-strand209-211352
β-strand214-217451
β-strand228-231450
α-helix235-2362
β-strand237155
α-helix250-2567
β-strand262-266556
β-strand271-275556
β-strand301155
β-strand307149
β-strand310-312350
α-helix318-34326
Chain E: 8 helices, 13 β-strands
ElementResiduesLengthSheet
α-helix3-2422
α-helix30-334
α-helix37-437
β-strand61-62257
β-strand71-72257
β-strand73-74258
β-strand81-82259
α-helix84-9714
β-strand101-103358
β-strand106160
β-strand109-110259
α-helix112-12110
β-strand126-128358
β-strand131160
β-strand148-150361
α-helix151-1522
α-helix153-16311
β-strand172-173261
α-helix178-1836
β-strand190-193461
β-strand205-209561
Chain F: 3 helices, 4 β-strands
ElementResiduesLengthSheet
α-helix59-7416
α-helix93-997
β-strand106162
β-strand109163
β-strand115163
β-strand118162
α-helix120-1223
Chain H: 1 helix, 12 β-strands
ElementResiduesLengthSheet
β-strand4-141164
β-strand26-32764
β-strand38-43664
β-strand55-61764
β-strand65165
β-strand83165
α-helix84-874
β-strand90-92364
β-strand96-98364
β-strand112-118764
β-strand121-127764
β-strand139164
β-strand142-148764
Chain I: 1 helix, 2 β-strands
ElementResiduesLengthSheet
α-helix26-294
β-strand36166
β-strand45166
Chain J: 5 helices, 2 β-strands
ElementResiduesLengthSheet
α-helix2-43
β-strand6167
β-strand13167
α-helix17-2610
α-helix31-377
α-helix43-464
α-helix60-623

4 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 I subunit RPA1Aprotein1720Homo sapiensO95602 (AlphaFold model)
DNA-directed RNA polymerase I subunit RPA2Bprotein1135Homo sapiensQ9H9Y6 (AlphaFold model)
DNA-directed RNA polymerases I and III subunit RPAC1Cprotein346Homo sapiensO15160 (AlphaFold model)
DNA-directed RNA polymerases I, II, and III subunit RPABC1Eprotein210Homo sapiensP19388 (AlphaFold model)
DNA-directed RNA polymerases I, II, and III subunit RPABC2Fprotein127Homo sapiensP61218
DNA-directed RNA polymerases I, II, and III subunit RPABC3Hprotein150Homo sapiensP52434
DNA-directed RNA polymerase I subunit RPA12Iprotein126Homo sapiensQ9P1U0
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
DNA-directed RNA polymerase I subunit RPA49Nprotein419Homo sapiensQ9GZS1
DNA-directed RNA polymerase I subunit RPA34Mprotein510Homo sapiensO15446
Sequence of entity 1 (A), FASTA
>8A43_1 DNA-directed RNA polymerase I subunit RPA1 (chains A)
MLISKNMPWRRLQGISFGMYSAEELKKLSVKSITNPRYLDSLGNPSANGLYDLALGPADS
KEVCSTCVQDFSNCSGHLGHIELPLTVYNPLLFDKLYLLLRGSCLNCHMLTCPRAVIHLL
LCQLRVLEVGALQAVYELERILNRFLEENPDPSASEIREELEQYTTEIVQNNLLGSQGAH
VKNVCESKSKLIALFWKAHMNAKRCPHCKTGRSVVRKEHNSKLTITFPAMVHRTAGQKDS
EPLGIEEAQIGKRGYLTPTSAREHLSALWKNEGFFLNYLFSGMDDDGMESRFNPSVFFLD
FLVVPPSRYRPVSRLGDQMFTNGQTVNLQAVMKDVVLIRKLLALMAQEQKLPEEVATPTT
DEEKDSLIAIDRSFLSTLPGQSLIDKLYNIWIRLQSHVNIVFDSEMDKLMMDKYPGIRQI
LEKKEGLFRKHMMGKRVDYAARSVICPDMYINTNEIGIPMVFATKLTYPQPVTPWNVQEL
RQAVINGPNVHPGASMVINEDGSRTALSAVDMTQREAVAKQLLTPATGAPKPQGTKIVCR
HVKNGDILLLNRQPTLHRPSIQAHRARILPEEKVLRLHYANCKAYNADFDGDEMNAHFPQ
SELGRAEAYVLACTDQQYLVPKDGQPLAGLIQDHMVSGASMTTRGCFFTREHYMELVYRG
LTDKVGRVKLLSPSILKPFPLWTGKQVVSTLLINIIPEDHIPLNLSGKAKITGKAWVKET
PRSVPGFNPDSMCESQVIIREGELLCGVLDKAHYGSSAYGLVHCCYEIYGGETSGKVLTC
LARLFTAYLQLYRGFTLGVEDILVKPKADVKRQRIIEESTHCGPQAVRAALNLPEAASYD
EVRGKWQDAHLGKDQRDFNMIDLKFKEEVNHYSNEINKACMPFGLHRQFPENSLQMMVQS
GAKGSTVNTMQISCLLGQIELEGRRPPLMASGKSLPCFEPYEFTPRAGGFVTGRFLTGIK
PPEFFFHCMAGREGLVDTAVKTSRSGYLQRCIIKHLEGLVVQYDLTVRDSDGSVVQFLYG
EDGLDIPKTQFLQPKQFPFLASNYEVIMKSQHLHEVLSRADPKKALHHFRAIKKWQSKHP
NTLLRRGAFLSYSQKIQEAVKALKLESENRNGRSPGTQEMLRMWYELDEESRRKYQKKAA
ACPDPSLSVWRPDIYFASVSETFETKVDDYSQEWAAQTEKSYEKSELSLDRLRTLLQLKW
QRSLCEPGEAVGLLAAQSIGEPSTQMTLNTFHFAGRGEMNVTLGIPRLREILMVASANIK
TPMMSVPVLNTKKALKRVKSLKKQLTRVCLGEVLQKIDVQESFCMEEKQNKFQVYQLRFQ
FLPHAYYQQEKCLRPEDILRFMETRFFKLLMESIKKKNNKASAFRNVNTRRATQRDLDNA
GELGRSRGEQEGDEEEEGHIVDAEAEEGDADASDAKRKEKQEEEVDYESEEEEEREGEEN
DDEDMQEERNPHREGARKTQEQDEEVGLGTEEDPSLPALLTQPRKPTHSQEPQGPEAMER
RVQAVREIHPFIDDYQYDTEESLWCQVTVKLPLMKINFDMSSLVVSLAHGAVIYATKGIT
RCLLNETTNNKNEKELVLNTEGINLPELFKYAEVLDLRRLYSNDIHAIANTYGIEAALRV
IEKEIKDVFAVYGIAVDPRHLSLVADYMCFEGVYKPLNRFGIRSNSSPLQQMTFETSFQF
LKQATMLGSHDELRSPSACLVVGKVVRGGTGLFELKQPLR
Sequence of entity 2 (B), FASTA
>8A43_2 DNA-directed RNA polymerase I subunit RPA2 (chains B)
MDPGSRWRNLPSGPSLKHLTDPSYGIPREQQKAALQELTRAHVESFNYAVHEGLGLAVQA
IPPFEFAFKDERISFTILDAVISPPTVPKGTICKEANVYPAECRGRRSTYRGKLTADINW
AVNGISKGIIKQFLGYVPIMVKSKLCNLRNLPPQALIEHHEEAEEMGGYFIINGIEKVIR
MLIMPRRNFPIAMIRPKWKTRGPGYTQYGVSMHCVREEHSAVNMNLHYLENGTVMLNFIY
RKELFFLPLGFALKALVSFSDYQIFQELIKGKEDDSFLRNSVSQMLRIVMEEGCSTQKQV
LNYLGECFRVKLNVPDWYPNEQAAEFLFNQCICIHLKSNTEKFYMLCLMTRKLFALAKGE
CMEDNPDSLVNQEVLTPGQLFLMFLKEKLEGWLVSIKIAFDKKAQKTSVSMNTDNLMRIF
TMGIDLTKPFEYLFATGNLRSKTGLGLLQDSGLCVVADKLNFIRYLSHFRCVHRGADFAK
MRTTTVRRLLPESWGFLCPVHTPDGEPCGLMNHLTAVCEVVTQFVYTASIPALLCNLGVT
PIDGAPHRSYSECYPVLLDGVMVGWVDKDLAPGIADSLRHFKVLREKRIPPWMEVVLIPM
TGKPSLYPGLFLFTTPCRLVRPVQNLALGKEELIGTMEQIFMNVAIFEDEVFAGVTTHQE
LFPHSLLSVIANFIPFSDHNQSPRNMYQCQMGKQTMGFPLLTYQDRSDNKLYRLQTPQSP
LVRPSMYDYYDMDNYPIGTNAIVAVISYTGYDMEDAMIVNKASWERGFAHGSVYKSEFID
LSEKIKQGDSSLVFGIKPGDPRVLQKLDDDGLPFIGAKLQYGDPYYSYLNLNTGESFVMY
YKSKENCVVDNIKVCSNDTGSGKFKCVCITMRVPRNPTIGDKFASRHGQKGILSRLWPAE
DMPFTESGMVPDILFNPHGFPSRMTIGMLIESMAGKSAALHGLCHDATPFIFSEENSALE
YFGEMLKAAGYNFYGTERLYSGISGLELEADIFIGVVYYQRLRHMVSDKFQVRTTGARDR
VTNQPIGGRNVQGGIRFGEMERDALLAHGTSFLLHDRLFNCSDRSVAHVCVKCGSLLSPL
LEKPPPSWSAMRNRKYNCTLCSRSDTIDTVSVPYVFRYFVAELAAMNIKVKLDVV
Sequence of entity 3 (C), FASTA
>8A43_3 DNA-directed RNA polymerases I and III subunit RPAC1 (chains C)
MAASQAVEEMRSRVVLGEFGVRNVHTTDFPGNYSGYDDAWDQDRFEKNFRVDVVHMDENS
LEFDMVGIDAAIANAFRRILLAEVPTMAVEKVLVYNNTSIVQDEILAHRLGLIPIHADPR
LFEYRNQGDEEGTEIDTLQFRLQVRCTRNPHAAKDSSDPNELYVNHKVYTRHMTWIPLGN
QADLFPEGTIRPVHDDILIAQLRPGQEIDLLMHCVKGIGKDHAKFSPVATASYRLLPDIT
LLEPVEGEAAEELSRCFSPGVIEVQEVQGKKVARVANPRLDTFSREIFRNEKLKKVVRLA
RVRDHYIFSVESTGVLPPDVLVSEAIKVLMGKCRRFLDELDAVQMD
Sequence of entity 4 (E), FASTA
>8A43_4 DNA-directed RNA polymerases I, II, and III subunit RPABC1 (chains E)
MDDEEETYRLWKIRKTIMQLCHDRGYLVTQDELDQTLEEFKAQSGDKPSEGRPRRTDLTV
LVAHNDDPTDQMFVFFPEEPKVGIKTIKVYCQRMQEENITRALIVVQQGMTPSAKQSLVD
MAPKYILEQFLQQELLINITEHELVPEHVVMTKEEVTELLARYKLRENQLPRIQAGDPVA
RYFGIKRGQVVKIIRPSETAGRYITYRLVQ
Sequence of entity 5 (F), FASTA
>8A43_5 DNA-directed RNA polymerases I, II, and III subunit RPABC2 (chains F)
MSDNEDNFDGDDFDDVEEDEGLDDLENAEEEGQENVEILPSGERPQANQKRITTPYMTKY
ERARVLGTRALQIAMCAPVMVELEGETDPLLIAMKELKARKIPIIIRRYLPDGSYEDWGV
DELIITD
Sequence of entity 6 (H), FASTA
>8A43_6 DNA-directed RNA polymerases I, II, and III subunit RPABC3 (chains H)
MAGILFEDIFDVKDIDPEGKKFDRVSRLHCESESFKMDLILDVNIQIYPVDLGDKFRLVI
ASTLYEDGTLDDGEYNPTDDRPSRADQFEYVMYGKVYRIEGDETSTEAATRLSAYVSYGG
LLMRLQGDANNLHGFEVDSRVYLLMKKLAF
Sequence of entity 7 (I), FASTA
>8A43_7 DNA-directed RNA polymerase I subunit RPA12 (chains I)
MSVMDLANTCSSFQSDLDFCSDCGSVLPLPGAQDTVTCIRCGFNINVRDFEGKVVKTSVV
FHQLGTAMPMSVEEGPECQGPVVDRRCPRCGHEGMAYHTRQMRSADEGQTVFYTCTNCKF
QEKEDS
Sequence of entity 8 (J), FASTA
>8A43_8 DNA-directed RNA polymerases I, II, and III subunit RPABC5 (chains J)
MIIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLAHVDLIEKLL
NYAPLEK
Sequence of entity 9 (K), FASTA
>8A43_9 DNA-directed RNA polymerases I and III subunit RPAC2 (chains K)
MEEDQELERKISGLKTSMAEGERKTALEMVQAAGTDRHCVTFVLHEEDHTLGNSLRYMIM
KNPEVEFCGYTTTHPSESKINLRIQTRGTLPAVEPFQRGLNELMNVCQHVLDKFEASIKD
YKDQKASRNESTF
Sequence of entity 10 (L), FASTA
>8A43_10 DNA-directed RNA polymerases I, II, and III subunit RPABC4 (chains L)
MDTQKDVQPPKQQPMIYICGECHTENEIKSRDPIRCRECGYRIMYKKRTKRLVVFDAR
Sequence of entity 11 (N), FASTA
>8A43_11 DNA-directed RNA polymerase I subunit RPA49 (chains N)
MAAEVLPSARWQYCGAPDGSQRAVLVQFSNGKLQSPGNMRFTLYENKDSTNPRKRNQRIL
AAETDRLSYVGNNFGTGALKCNTLCRHFVGILNKTSGQMEVYDAELFNMQPLFSDVSVES
ELALESQTKTYREKMDSCIEAFGTTKQKRALNTRRMNRVGNESLNRAVAKAAETIIDTKG
VTALVSDAIHNDLQDDSLYLPPCYDDAAKPEDVYKFEDLLSPAEYEALQSPSEAFRNVTS
EEILKMIEENSHCTFVIEALKSLPSDVESRDRQARCIWFLDTLIKFRAHRVVKRKSALGP
GVPHIINTKLLKHFTCLTYNNGRLRNLISDSMKAKITAYVIILALHIHDFQIDLTVLQRD
LKLSEKRMMEIAKAMRLKISKRRVSVAAGSEEDHKLGTLSLPLPPAQTSDRLAKRRKIT
Sequence of entity 12 (M), FASTA
>8A43_12 DNA-directed RNA polymerase I subunit RPA34 (chains M)
MEEPQAGDAARFSCPPNFTAKPPASESPRFSLEALTGPDTELWLIQAPADFAPECFNGRH
VPLSGSQIVKGKLAGKRHRYRVLSSCPQAGEATLLAPSTEAGGGLTCASAPQGTLRILEG
PQQSLSGSPLQPIPASPPPQIPPGLRPRFCAFGGNPPVTGPRSALAPNLLTSGKKKKEMQ
VTEAPVTQEAVNGHGALEVDMALGSPEMDVRKKKKKKNQQLKEPEAAGPVGTEPTVETLE
PLGVLFPSTTKKRKKPKGKETFEPEDKTVKQEQINTEPLEDTVLSPTKKRKRQKGTEGME
PEEGVTVESQPQVKVEPLEEAIPLPPTKKRKKEKGQMAMMEPGTEAMEPVEPEMKPLESP
GGTMAPQQPEGAKPQAQAALAAPKKKTKKEKQQDATVEPETEVVGPELPDDLEPQAAPTS
TKKKKKKKERGHTVTEPIQPLEPELPGEGQPEARATPGSTKKRKKQSQESRMPETVPQEE
MPGPPLNSESGEEAPTGRDKKRKQQQQQPV

Primary citation

The human RNA polymerase I structure reveals an HMG-like docking domain specific to metazoans. Daiss, J.L., Pilsl, M., Straub, K. et al. Life Sci Alliance (2022) 5. DOI 10.26508/lsa.202201568 · PubMed

Other PDB entries of the same protein (UniProt O95602 (AlphaFold model), which also has an AlphaFold model), best resolution first:

Browse structure collections

About this viewer

MolViewer shows 8A43 directly in your browser with nothing to install. Switch between cartoon, ball-and-stick, spacefill and surface views, color by chain, secondary structure or B-factor, measure distances, angles and dihedrals, and share or embed the view.