5OA1: RNA polymerase I pre-initiation complex
RNA polymerase I pre-initiation complex. Determined by electron microscopy at 4.4 Å resolution. Released 26 Jul 2017.
- Method
- Electron microscopy
- Resolution
- 4.4 Å
- Organisms
- Saccharomyces cerevisiae S288C, Saccharomyces cerevisiae S288c
- Chains
- 34
- Atoms
- 43,459
- Mol. weight
- 944.73 kDa
- Ligands
- ZN
- Released
- 26 Jul 2017
Explore 5OA1 in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
5OA1 contains 282 α-helices and 275 β-strands across 32 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 1: 1 helix, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 10-20 | 11 | |
Chain 2: 1 helix, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 3-19 | 17 | |
Chain 3: 1 helix, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 16-22 | 7 | |
Chain 4: 1 helix, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 3-23 | 21 | |
Chain 5: 1 helix, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 28-41 | 14 | |
Chain 6: 1 helix, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 44-51 | 8 | |
Chain 7: 1 helix, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 54-76 | 23 | |
Chain 8: 1 helix, 0 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 79-86 | 8 | |
24 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.
Molecules and chains
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|
| DNA-directed RNA polymerase I subunit RPA190 | A | protein | 1664 | Saccharomyces cerevisiae S288C | P10964 (AlphaFold model) |
| DNA-directed RNA polymerase I subunit RPA135 | B | protein | 1203 | Saccharomyces cerevisiae S288C | P22138 (AlphaFold model) |
| DNA-directed RNA polymerases I and III subunit RPAC1 | C | protein | 335 | Saccharomyces cerevisiae S288C | P07703 (AlphaFold model) |
| DNA-directed RNA polymerase I subunit RPA14 | D | protein | 137 | Saccharomyces cerevisiae S288C | P50106 (AlphaFold model) |
| DNA-directed RNA polymerases I, II, and III subunit RPABC1 | E | protein | 215 | Saccharomyces cerevisiae S288C | P20434 |
| DNA-directed RNA polymerases I, II, and III subunit RPABC2 | F | protein | 155 | Saccharomyces cerevisiae S288C | P20435 |
| DNA-directed RNA polymerase I subunit RPA43 | G | protein | 326 | Saccharomyces cerevisiae S288C | P46669 |
| DNA-directed RNA polymerases I, II, and III subunit RPABC3 | H | protein | 146 | Saccharomyces cerevisiae S288C | P20436 |
| DNA-directed RNA polymerase I subunit RPA12 | I | protein | 125 | Saccharomyces cerevisiae S288C | P32529 |
| DNA-directed RNA polymerases I, II, and III subunit RPABC5 | J | protein | 70 | Saccharomyces cerevisiae S288C | P22139 |
| DNA-directed RNA polymerases I and III subunit RPAC2 | K | protein | 142 | Saccharomyces cerevisiae S288C | P28000 |
| DNA-directed RNA polymerases I, II, and III subunit RPABC4 | L | protein | 70 | Saccharomyces cerevisiae S288C | P40422 |
19 more molecules are not listed.
Sequence of entity 1 (A), FASTA
>5OA1_1 DNA-directed RNA polymerase I subunit RPA190 (chains A)
MDISKPVGSEITSVDFGILTAKEIRNLSAKQITNPTVLDNLGHPVSGGLYDLALGAFLRN
LCSTCGLDEKFCPGHQGHIELPVPCYNPLFFNQLYIYLRASCLFCHHFRLKSVEVHRYAC
KLRLLQYGLIDESYKLDEITLGSLNSSMYTDDEAIEDNEDEMDGEGSKQSKDISSTLLNE
LKSKRSEYVDMAIAKALSDGRTTERGSFTATVNDERKKLVHEFHKKLLSRGKCDNCGMFS
PKFRKDGFTKIFETALNEKQITNNRVKGFIRQDMIKKQKQAKKLDGSNEASANDEESFDV
GRNPTTRPKTGSTYILSTEVKNILDTVFRKEQCVLQYVFHSRPNLSRKLVKADSFFMDVL
VVPPTRFRLPSKLGEEVHENSQNQLLSKVLTTSLLIRDLNDDLSKLQKDKVSLEDRRVIF
SRLMNAFVTIQNDVNAFIDSTKAQGRTSGKVPIPGVKQALEKKEGLFRKHMMGKRVNYAA
RSVISPDPNIETNEIGVPPVFAVKLTYPEPVTAYNIAELRQAVINGPDKWPGATQIQNED
GSLVSLIGMSVEQRKALANQLLTPSSNVSTHTLNKKVYRHIKNRDVVLMNRQPTLHKASM
MGHKVRVLPNEKTLRLHYANTGAYNADFDGDEMNMHFPQNENARAEALNLANTDSQYLTP
TSGSPVRGLIQDHISAGVWLTSKDSFFTREQYQQYIYGCIRPEDGHTTRSKIVTLPPTIF
KPYPLWTGKQIITTVLLNVTPPDMPGINLISKNKIKNEYWGKGSLENEVLFKDGALLCGI
LDKSQYGASKYGIVHSLHEVYGPEVAAKVLSVLGRLFTNYITATAFTCGMDDLRLTAEGN
KWRTDILKTSVDTGREAAAEVTNLDKDTPADDPELLKRLQEILRDNNKSGILDAVTSSKV
NAITSQVVSKCVPDGTMKKFPCNSMQAMALSGAKGSNVNVSQIMCLLGQQALEGRRVPVM
VSGKTLPSFKPYETDAMAGGYVKGRFYSGIKPQEYYFHCMAGREGLIDTAVKTSRSGYLQ
RCLTKQLEGVHVSYDNSIRDADGTLVQFMYGGDAIDITKESHMTQFEFCLDNYYALLKKY
NPSALIEHLDVESALKYSKKTLKYRKKHSKEPHYKQSVKYDPVLAKYNPAKYLGSVSENF
QDKLESFLDKNSKLFKSSDGVNEKKFRALMQLKYMRSLINPGEAVGIIASQSVGEPSTQM
TLNTFHFAGHGAANVTLGIPRLREIVMTASAAIKTPQMTLPIWNDVSDEQADTFCKSISK
VLLSEVIDKVIVTETTGTSNTAGGNAARSYVIHMRFFDNNEYSEEYDVSKEELQNVISNQ
FIHLLEAAIVKEIKKQKRTTGPDIGVAVPRLQTDVANSSSNSKRLEEDNDEEQSHKKTKQ
AVSYDEPDEDEIETMREAEKSSDEEGIDSDKESDSDSEDEDVDMNEQINKSIVEANNNMN
KVQRDRQSAIISHHRFITKYNFDDESGKWCEFKLELAADTEKLLMVNIVEEICRKSIIRQ
IPHIDRCVHPEPENGKRVLVTEGVNFQAMWDQEAFIDVDGITSNDVAAVLKTYGVEAARN
TIVNEINNVFSRYAISVSFRHLDLIADMMTRQGTYLAFNRQGMETSTSSFMKMSYETTCQ
FLTKAVLDNEREQLDSPSARIVVGKLNNVGTGSFDVLAKVPNAA
Sequence of entity 2 (B), FASTA
>5OA1_2 DNA-directed RNA polymerase I subunit RPA135 (chains B)
MSKVIKPPGQARTADFRTLERESRFINPPKDKSAFPLLQEAVQPHIGSFNALTEGPDGGL
LNLGVKDIGEKVIFDGKPLNSEDEISNSGYLGNKLSVSVEQVSIAKPMSNDGVSSAVERK
VYPSESRQRLTSYRGKLLLKLKWSVNNGEENLFEVRDCGGLPVMLQSNRCHLNKMSPYEL
VQHKEESDEIGGYFIVNGIEKLIRMLIVQRRNHPMAIIRPSFANRGASYSHYGIQIRSVR
PDQTSQTNVLHYLNDGQVTFRFSWRKNEYLVPVVMILKALCHTSDREIFDGIIGNDVKDS
FLTDRLELLLRGFKKRYPHLQNRTQVLQYLGDKFRVVFQASPDQSDLEVGQEVLDRIVLV
HLGKDGSQDKFRMLLFMIRKLYSLVAGECSPDNPDATQHQEVLLGGFLYGMILKEKIDEY
LQNIIAQVRMDINRGMAINFKDKRYMSRVLMRVNENIGSKMQYFLSTGNLVSQSGLDLQQ
VSGYTVVAEKINFYRFISHFRMVHRGSFFAQLKTTTVRKLLPESWGFLCPVHTPDGSPCG
LLNHFAHKCRISTQQSDVSRIPSILYSLGVAPASHTFAAGPSLCCVQIDGKIIGWVSHEQ
GKIIADTLRYWKVEGKTPGLPIDLEIGYVPPSTRGQYPGLYLFGGHSRMLRPVRYLPLDK
EDIVGPFEQVYMNIAVTPQEIQNNVHTHVEFTPTNILSILANLTPFSDFNQSPRNMYQCQ
MGKQTMGTPGVALCHRSDNKLYRLQTGQTPIVKANLYDDYGMDNFPNGFNAVVAVISYTG
YDMDDAMIINKSADERGFGYGTMYKTEKVDLALNRNRGDPITQHFGFGNDEWPKEWLEKL
DEDGLPYIGTYVEEGDPICAYFDDTLNKTKIKTYHSSEPAYIEEVNLIGDESNKFQELQT
VSIKYRIRRTPQIGDKFSSRHGQKGVCSRKWPTIDMPFSETGIQPDIIINPHAFPSRMTI
GMFVESLAGKAGALHGIAQDSTPWIFNEDDTPADYFGEQLAKAGYNYHGNEPMYSGATGE
ELRADIYVGVVYYQRLRHMVNDKFQVRSTGPVNSLTMQPVKGRKRHGGIRVGEMERDALI
GHGTSFLLQDRLLNSSDYTQASVCRECGSILTTQQSVPRIGSISTVCCRRCSMRFEDAKK
LLTKSEDGEKIFIDDSQIWEDGQGNKFVGGNETTTVAIPFVLKYLDSELSAMGIRLRYNV
EPK
Sequence of entity 3 (C), FASTA
>5OA1_3 DNA-directed RNA polymerases I and III subunit RPAC1 (chains C)
MSNIVGIEYNRVTNTTSTDFPGFSKDAENEWNVEKFKKDFEVNISSLDAREANFDLINID
TSIANAFRRIMISEVPSVAAEYVYFFNNTSVIQDEVLAHRIGLVPLKVDPDMLTWVDSNL
PDDEKFTDENTIVLSLNVKCTRNPDAPKGSTDPKELYNNAHVYARDLKFEPQGRQSTTFA
DCPVVPADPDILLAKLRPGQEISLKAHCILGIGGDHAKFSPVSTASYRLLPQINILQPIK
GESARRFQKCFPPGVIGIDEGSDEAYVKDARKDTVSREVLRYEEFADKVKLGRVRNHFIF
NVESAGAMTPEEIFFKSVRILKNKAEYLKNCPITQ
Sequence of entity 4 (D), FASTA
>5OA1_4 DNA-directed RNA polymerase I subunit RPA14 (chains D)
MMKGSRRTGNNTATTLNTPVVIHATQLPQHVSTDEVLQFLESFIDEKENIIDSTTMNTIS
GNAADADAAAVANTSLNIDTNLSSSISQLKRIQRDFKGLPPAQDFSAAPIQVSTTEKKET
SIGVSATGGKKTTFADE
Sequence of entity 5 (E), FASTA
>5OA1_5 DNA-directed RNA polymerases I, II, and III subunit RPABC1 (chains E)
MDQENERNISRLWRAFRTVKEMVKDRGYFITQEEVELPLEDFKAKYCDSMGRPQRKMMSF
QANPTEESISKFPDMGSLWVEFCDEPSVGVKTMKTFVIHIQEKNFQTGIFVYQNNITPSA
MKLVPSIPPATIETFNEAALVVNITHHELVPKHIRLSSDEKRELLKRYRLKESQLPRIQR
ADPVALYLGLKRGEVVKIIRKSETSGRYASYRICM
Sequence of entity 6 (F), FASTA
>5OA1_6 DNA-directed RNA polymerases I, II, and III subunit RPABC2 (chains F)
MSDYEEAFNDGNENFEDFDVEHFSDEETYEEKPQFKDGETTDANGKTIVTGGNGPEDFQQ
HEQIRRKTLKEKAIPKDQRATTPYMTKYERARILGTRALQISMNAPVFVDLEGETDPLRI
AMKELAEKKIPLVIRRYLPDGSFEDWSVEELIVDL
Sequence of entity 7 (G), FASTA
>5OA1_7 DNA-directed RNA polymerase I subunit RPA43 (chains G)
MSQVKRANENRETARFIKKHKKQVTNPIDEKNGTSNCIVRVPIALYVSLAPMYLENPLQG
VMKQHLNPLVMKYNNKVGGVVLGYEGLKILDADPLSKEDTSEKLIKITPDTPFGFTWCHV
NLYVWQPQVGDVLEGYIFIQSASHIGLLIHDAFNASIKKNNIPVDWTFVHNDVEEDADVI
NTDENNGNNNNEDNKDSNGGSNSLGKFSFGNRSLGHWVDSNGEPIDGKLRFTVRNVHTTG
RVVSVDGTLISDADEEGNGYNSSRSQAESLPIVSNKKIVFDDEVSIENKESHKELDLPEV
KEDNGSEIVYEENTSESNDGESSDSD
Sequence of entity 8 (H), FASTA
>5OA1_8 DNA-directed RNA polymerases I, II, and III subunit RPABC3 (chains H)
MSNTLFDDIFQVSEVDPGRYNKVCRIEAASTTQDQCKLTLDINVELFPVAAQDSLTVTIA
SSLNLEDTPANDSSATRSWRPPQAGDRSLADDYDYVMYGTAYKFEEVSKDLIAVYYSFGG
LLMRLEGNYRNLNNLKQENAYLLIRR
Sequence of entity 9 (I), FASTA
>5OA1_9 DNA-directed RNA polymerase I subunit RPA12 (chains I)
MSVVGSLIFCLDCGDLLENPNAVLGSNVECSQCKAIYPKSQFSNLKVVTTTADDAFPSSL
RAKKSVVKTSLKKNELKDGATIKEKCPQCGNEEMNYHTLQLRSADEGATVFYTCTSCGYK
FRTNN
Sequence of entity 10 (J), FASTA
>5OA1_10 DNA-directed RNA polymerases I, II, and III subunit RPABC5 (chains J)
MIVPVRCFSCGKVVGDKWESYLNLLQEDELDEGTALSRLGLKRYCCRRMILTHVDLIEKF
LRYNPLEKRD
Sequence of entity 11 (K), FASTA
>5OA1_11 DNA-directed RNA polymerases I and III subunit RPAC2 (chains K)
MTEDIEQKKTATEVTPQEPKHIQEEEEQDVDMTGDEEQEEEPDREKIKLLTQATSEDGTS
ASFQIVEEDHTLGNALRYVIMKNPDVEFCGYSIPHPSENLLNIRIQTYGETTAVDALQKG
LKDLMDLCDVVESKFTEKIKSM
Sequence of entity 12 (L), FASTA
>5OA1_12 DNA-directed RNA polymerases I, II, and III subunit RPABC4 (chains L)
MSREGFQIPTNLDAAAAGTSQARTATLKYICAECSSKLSLSRTDAVRCKDCGHRILLKAR
TKRLVQFEAR
Ligands and cofactors
| ID | Name | Formula | Copies |
|---|
| ZN | Zinc ion | Zn | 7 |
Primary citation
Structural insights into transcription initiation by yeast RNA polymerase I. Sadian, Y., Tafur, L., Kosinski, J. et al. EMBO J (2017) 36:2698-2709. DOI 10.15252/embj.201796958 · PubMed
Other PDB entries of the same protein (UniProt P10964 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 6RUI 2.7 Å, RNA Polymerase I Pre-initiation complex DNA opening intermediate 2
- 9G1V 2.7 Å, Yeast RNA polymerase I elongation complex stalled by an apurinic site
- 4C2M 2.8 Å, Structure of RNA polymerase I at 2.8 A resolution
- 9G27 2.8 Å, Yeast RNA polymerase I elongation complex stalled by an apurinic site, pre-translocation…
- 6RQL 2.9 Å, RNA Polymerase I Closed Conformation 2 (CC2)
- 4C3I 3.0 Å, Structure of 14-subunit RNA polymerase I at 3.0 A resolution, crystal form C2-100
- 6RWE 3.0 Å, RNA Polymerase I Open Complex conformation 2
- 6RRD 3.1 Å, RNA Polymerase I Pre-initiation complex DNA opening intermediate 1
- 6HLQ 3.18 Å, Yeast RNA polymerase I* elongation complex bound to nucleotide analog GMPCPP
- 6HLR 3.18 Å, Yeast RNA polymerase I elongation complex bound to nucleotide analog GMPCPP (core focused)
- 9G2B 3.2 Å, Yeast RNA polymerase I elongation complex stalled by an apurinic site, 12-subunit
- 6HLS 3.21 Å, Yeast apo RNA polymerase I*
Browse structure collections
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