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- EMDB-11840: Schizosaccharomyces pombe RNA polymerase I (monomer) -

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Basic information

Entry
Database: EMDB / ID: EMD-11840
TitleSchizosaccharomyces pombe RNA polymerase I (monomer)
Map data
Sample
  • Complex: S. pombe RNA polymerase I
    • Protein or peptide: x 12 types
  • Ligand: x 1 types
KeywordsTRANSCRIPTION
Function / homology
Function and homology information


RNA Polymerase I Transcription Initiation / RNA polymerase II transcribes snRNA genes / Processing of Capped Intron-Containing Pre-mRNA / RNA Polymerase II Promoter Escape / RNA Polymerase II Transcription Pre-Initiation And Promoter Opening / RNA Polymerase II Transcription Initiation / RNA Polymerase II Transcription Initiation And Promoter Clearance / RNA Polymerase III Transcription Initiation From Type 1 Promoter / RNA Polymerase III Transcription Initiation From Type 2 Promoter / RNA polymerase II, holoenzyme ...RNA Polymerase I Transcription Initiation / RNA polymerase II transcribes snRNA genes / Processing of Capped Intron-Containing Pre-mRNA / RNA Polymerase II Promoter Escape / RNA Polymerase II Transcription Pre-Initiation And Promoter Opening / RNA Polymerase II Transcription Initiation / RNA Polymerase II Transcription Initiation And Promoter Clearance / RNA Polymerase III Transcription Initiation From Type 1 Promoter / RNA Polymerase III Transcription Initiation From Type 2 Promoter / RNA polymerase II, holoenzyme / mRNA Capping / RNA Pol II CTD phosphorylation and interaction with CE / Estrogen-dependent gene expression / Formation of the Early Elongation Complex / RNA Polymerase I Promoter Escape / RNA Polymerase II Pre-transcription Events / TP53 Regulates Transcription of DNA Repair Genes / Transcriptional regulation by small RNAs / Formation of TC-NER Pre-Incision Complex / Dual incision in TC-NER / Gap-filling DNA repair synthesis and ligation in TC-NER / DNA-templated transcription elongation / termination of RNA polymerase I transcription / RNA polymerase III activity / transcription by RNA polymerase I / transcription initiation at RNA polymerase I promoter / transcription by RNA polymerase III / transcription elongation by RNA polymerase I / tRNA transcription by RNA polymerase III / RNA polymerase I complex / RNA polymerase I activity / RNA polymerase III complex / RNA polymerase II, core complex / transcription initiation at RNA polymerase II promoter / ribonucleoside binding / DNA-directed 5'-3' RNA polymerase activity / DNA-directed RNA polymerase / transcription by RNA polymerase II / nucleic acid binding / protein dimerization activity / nucleolus / DNA binding / zinc ion binding / nucleus / metal ion binding / cytosol
Similarity search - Function
RNA polymerase I, subunit Rpa14, fungi / Yeast RNA polymerase I subunit RPA14 / RPA43, OB domain / RPA43 OB domain in RNA Pol I / DNA-directed RNA polymerase I subunit RPA2, domain 4 / DNA-directed RNA pol I, largest subunit / Pol I subunit A12, C-terminal zinc ribbon / : / RNA polymerase I, Rpa2 specific domain / DNA-directed RNA polymerases I and III subunit AC19 ...RNA polymerase I, subunit Rpa14, fungi / Yeast RNA polymerase I subunit RPA14 / RPA43, OB domain / RPA43 OB domain in RNA Pol I / DNA-directed RNA polymerase I subunit RPA2, domain 4 / DNA-directed RNA pol I, largest subunit / Pol I subunit A12, C-terminal zinc ribbon / : / RNA polymerase I, Rpa2 specific domain / DNA-directed RNA polymerases I and III subunit AC19 / DNA-directed RNA polymerases I and III subunit AC40 / Zinc finger TFIIS-type signature. / RNA polymerase Rpb7-like , N-terminal / RNA polymerase Rpb7-like, N-terminal domain superfamily / RNA polymerase subunit Rpb7-like / SHS2 domain found in N terminus of Rpb7p/Rpc25p/MJ0397 / DNA-directed RNA polymerase, M/15kDa subunit / RNA polymerases M/15 Kd subunit / RNA polymerase subunit 9 / DNA-directed RNA polymerase M, 15kDa subunit, conserved site / RNA polymerases M / 15 Kd subunits signature. / DNA-directed RNA polymerase subunit/transcription factor S / : / RNA polymerase, Rpb8 / DNA-directed RNA polymerases I, II, and III subunit RPABC4 / RNA polymerase Rpb8 / RNA polymerase subunit 8 / RNA polymerase, Rpb5, N-terminal / RNA polymerase Rpb5, N-terminal domain superfamily / RNA polymerase Rpb5, N-terminal domain / DNA-directed RNA polymerase subunit RPABC5/Rpb10 / RNA polymerases, subunit N, zinc binding site / RNA polymerase subunit RPB10 / RNA polymerases N / 8 kDa subunit / RNA polymerases N / 8 Kd subunits signature. / DNA-directed RNA polymerase, subunit RPB6 / DNA directed RNA polymerase, 7 kDa subunit / RNA polymerase archaeal subunit P/eukaryotic subunit RPABC4 / RNA polymerase, subunit H/Rpb5, conserved site / RNA polymerases H / 23 Kd subunits signature. / RNA polymerase subunit CX / DNA-directed RNA polymerase, 30-40kDa subunit, conserved site / DNA-directed RNA polymerase subunit Rpo3/Rpb3/RPAC1 / RNA polymerases D / 30 to 40 Kd subunits signature. / DNA-directed RNA polymerase Rpb11, 13-16kDa subunit, conserved site / DNA-directed RNA polymerase subunit Rpo11 / RNA polymerases L / 13 to 16 Kd subunits signature. / Zinc finger, TFIIS-type / DNA-directed RNA polymerase subunit Rpo5/Rpb5 / Transcription factor S-II (TFIIS) / Zinc finger TFIIS-type profile. / C2C2 Zinc finger / RNA polymerase subunit RPABC4/transcription elongation factor Spt4 / DNA-directed RNA polymerase, RBP11-like dimerisation domain / RNA polymerase Rpb3/Rpb11 dimerisation domain / RNA polymerase, subunit H/Rpb5 C-terminal / RPB5-like RNA polymerase subunit superfamily / RNA polymerase Rpb5, C-terminal domain / Archaeal Rpo6/eukaryotic RPB6 RNA polymerase subunit / DNA-directed RNA polymerase, 14-18kDa subunit, conserved site / RNA polymerases K / 14 to 18 Kd subunits signature. / RNA polymerase Rpb6 / RNA polymerase, subunit omega/Rpo6/RPB6 / RNA polymerase Rpb6 / RNA polymerase Rpb1, domain 3 superfamily / RPB6/omega subunit-like superfamily / RNA polymerase Rpb1, clamp domain superfamily / RNA polymerase Rpb2, domain 2 superfamily / RNA polymerase Rpb1, domain 3 / RNA polymerase Rpb1, domain 3 / DNA-directed RNA polymerase, subunit beta-prime / RNA polymerase Rpb1, domain 1 / RNA polymerase Rpb1, domain 1 / DNA-directed RNA polymerase, insert domain / DNA-directed RNA polymerase, RpoA/D/Rpb3-type / RNA polymerase Rpb3/RpoA insert domain / RNA polymerase Rpb3/Rpb11 dimerisation domain / RNA polymerases D / RNA polymerase, alpha subunit / RNA polymerase Rpb1, domain 5 / RNA polymerase Rpb1, domain 4 / RNA polymerase Rpb1, domain 2 / RNA polymerase Rpb1, domain 5 / RNA polymerase Rpb1, domain 4 / RNA polymerase, beta subunit, protrusion / RNA polymerase beta subunit / RNA polymerase, N-terminal / RNA polymerase Rpb1, funnel domain superfamily / RNA polymerase I subunit A N-terminus / DNA-directed RNA polymerase, insert domain superfamily / RNA polymerase, RBP11-like subunit / RNA polymerase Rpb2, domain 2 / RNA polymerase Rpb2, domain 2 / RNA polymerase, beta subunit, conserved site / RNA polymerase Rpb2, domain 7 / RNA polymerase Rpb2, domain 3 / RNA polymerase Rpb2, OB-fold / RNA polymerase Rpb2, domain 7 / RNA polymerase Rpb2, domain 3 / RNA polymerases beta chain signature.
Similarity search - Domain/homology
DNA-directed RNA polymerases I, II, and III subunit RPABC5 / DNA-directed RNA polymerase I subunit rpa43 / DNA-directed RNA polymerases I and III subunit RPAC1 / DNA-directed RNA polymerase I subunit RPA12 / DNA-directed RNA polymerase I subunit rpa1 / DNA-directed RNA polymerases I, II, and III subunit RPABC2 / DNA-directed RNA polymerases I, II, and III subunit RPABC4 / DNA-directed RNA polymerases I and III subunit RPAC2 / DNA-directed RNA polymerases I, II, and III subunit RPABC1 / DNA-directed RNA polymerases I, II, and III subunit RPABC3 ...DNA-directed RNA polymerases I, II, and III subunit RPABC5 / DNA-directed RNA polymerase I subunit rpa43 / DNA-directed RNA polymerases I and III subunit RPAC1 / DNA-directed RNA polymerase I subunit RPA12 / DNA-directed RNA polymerase I subunit rpa1 / DNA-directed RNA polymerases I, II, and III subunit RPABC2 / DNA-directed RNA polymerases I, II, and III subunit RPABC4 / DNA-directed RNA polymerases I and III subunit RPAC2 / DNA-directed RNA polymerases I, II, and III subunit RPABC1 / DNA-directed RNA polymerases I, II, and III subunit RPABC3 / DNA-directed RNA polymerase I subunit rpa14 / Probable DNA-directed RNA polymerase I subunit RPA2
Similarity search - Component
Biological speciesSchizosaccharomyces pombe (strain 972 / ATCC 24843) (yeast)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.84 Å
AuthorsHeiss F / Daiss J
Funding support Germany, 2 items
OrganizationGrant numberCountry
German Research Foundation (DFG)SFB 960 (TP-A8) Germany
German Research Foundation (DFG)EN 1204/1-1 Germany
CitationJournal: Nat Commun / Year: 2021
Title: Conserved strategies of RNA polymerase I hibernation and activation.
Authors: Florian B Heiss / Julia L Daiß / Philipp Becker / Christoph Engel /
Abstract: RNA polymerase (Pol) I transcribes the ribosomal RNA precursor in all eukaryotes. The mechanisms 'activation by cleft contraction' and 'hibernation by dimerization' are unique to the regulation of ...RNA polymerase (Pol) I transcribes the ribosomal RNA precursor in all eukaryotes. The mechanisms 'activation by cleft contraction' and 'hibernation by dimerization' are unique to the regulation of this enzyme, but structure-function analysis is limited to baker's yeast. To understand whether regulation by such strategies is specific to this model organism or conserved among species, we solve three cryo-EM structures of Pol I from Schizosaccharomyces pombe in different functional states. Comparative analysis of structural models derived from high-resolution reconstructions shows that activation is accomplished by a conserved contraction of the active center cleft. In contrast to current beliefs, we find that dimerization of the S. pombe polymerase is also possible. This dimerization is achieved independent of the 'connector' domain but relies on two previously undescribed interfaces. Our analyses highlight the divergent nature of Pol I transcription systems from their counterparts and suggest conservation of regulatory mechanisms among organisms.
History
DepositionOct 14, 2020-
Header (metadata) releaseFeb 24, 2021-
Map releaseFeb 24, 2021-
UpdateOct 16, 2024-
Current statusOct 16, 2024Processing site: PDBe / Status: Released

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 0.08
  • Imaged by UCSF Chimera
  • Download
  • Surface view colored by radius
  • Surface level: 0.08
  • Imaged by UCSF Chimera
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  • Surface view with fitted model
  • Atomic models: PDB-7aoc
  • Surface level: 0.08
  • Imaged by UCSF Chimera
  • Download
Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

emd_11840.png

Downloads & links

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Map

FileDownload / File: emd_11840.map.gz / Format: CCP4 / Size: 40.6 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.06 Å/pix.
x 220 pix.
= 233.97 Å		1.06 Å/pix.
x 220 pix.
= 233.97 Å		1.06 Å/pix.
x 220 pix.
= 233.97 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.0635 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.11 / Movie #1: 0.08
Minimum - Maximum-0.29095113 - 0.5005255
Average (Standard dev.)0.00017825559 (±0.020055536)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions220220220
Spacing220220220
CellA=B=C: 233.97002 Å
α=β=γ: 90.0 °

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z1.06351.06351.0635
M x/y/z220220220
origin x/y/z0.0000.0000.000
length x/y/z233.970233.970233.970
α/β/γ90.00090.00090.000
start NX/NY/NZ000
NX/NY/NZ410410410
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS220220220
D min/max/mean-0.2910.5010.000

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Supplemental data

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Sample components

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Entire : S. pombe RNA polymerase I

EntireName: S. pombe RNA polymerase I
Components
  • Complex: S. pombe RNA polymerase I
    • Protein or peptide: DNA-directed RNA polymerase I subunit rpa1
    • Protein or peptide: Probable DNA-directed RNA polymerase I subunit RPA2
    • Protein or peptide: DNA-directed RNA polymerases I and III subunit RPAC1
    • Protein or peptide: DNA-directed RNA polymerase I subunit rpa14
    • Protein or peptide: DNA-directed RNA polymerases I, II, and III subunit RPABC1
    • Protein or peptide: DNA-directed RNA polymerases I, II, and III subunit RPABC2
    • Protein or peptide: DNA-directed RNA polymerase I subunit rpa43
    • Protein or peptide: DNA-directed RNA polymerases I, II, and III subunit RPABC3
    • Protein or peptide: DNA-directed RNA polymerase I subunit RPA12
    • Protein or peptide: DNA-directed RNA polymerases I, II, and III subunit RPABC5
    • Protein or peptide: DNA-directed RNA polymerases I and III subunit RPAC2
    • Protein or peptide: DNA-directed RNA polymerases I, II, and III subunit RPABC4
  • Ligand: ZINC ION

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Supramolecule #1: S. pombe RNA polymerase I

SupramoleculeName: S. pombe RNA polymerase I / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#12
Source (natural)Organism: Schizosaccharomyces pombe (strain 972 / ATCC 24843) (yeast)

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Macromolecule #1: DNA-directed RNA polymerase I subunit rpa1

MacromoleculeName: DNA-directed RNA polymerase I subunit rpa1 / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO / EC number: DNA-directed RNA polymerase
Source (natural)Organism: Schizosaccharomyces pombe (strain 972 / ATCC 24843) (yeast)
Strain: 972 / ATCC 24843
Molecular weightTheoretical: 189.489656 KDa
SequenceString: MNIAQPVSSE IKSVKFGIYD VDDVEKISVK QIVNPVLLDN LNHPTNGGLY DLALGPYLKN SVCATCHLDE RYCPGHFGHI VLPIPAYHP LFFSQMYNLL RSTCLYCHHF KLSKVKVHLF FCRLKLLDYG LLNESEMVEN VSLTEAIIKN SNGTPLEDGS D SEDSGLGH ...String:
MNIAQPVSSE IKSVKFGIYD VDDVEKISVK QIVNPVLLDN LNHPTNGGLY DLALGPYLKN SVCATCHLDE RYCPGHFGHI VLPIPAYHP LFFSQMYNLL RSTCLYCHHF KLSKVKVHLF FCRLKLLDYG LLNESEMVEN VSLTEAIIKN SNGTPLEDGS D SEDSGLGH DDIAKDAATL MRIRDEFVAK SIADSRQNAH IDAQLTTLLL HERKKVVRAF YHAISSRKQC DNCQSFSPNF RK EGFAKIF EIPLSGKNLQ FMEQTGKIRS DVLRDTSKKH HEDEGYDGDS DSSNESEVEG IDLFEEDPNP LKNKSKSPIA HGA KYMTST EVRNHLRRLF VKENVVLSRL YAHKRGKPAS ADMFFLQNIA VPPTRFRPAS KMGDEVHENI QNELLTRILQ SSIQ IASLS KDSTVEVNPD EKEGLERRSR AFELLINAFV QLQHDVNSLI DSNRNPSSGG QSRTVPPGIK QILEKKEGLF RKHMM GKRV NYAARSVISP DPNIETNEIG VPPVFATKLT YPEPVTLYNF NEMRNAVING PHKWPGASHI QNEDGTLISL MPLTIE QRT ALANQLLTPQ SNLISSPYSY SRLINTNKKV YRHVRNGDML ILNRQPTLHK PSMMAHKARI LPGEKTIRMH YANCNSY NA DFDGDEMNMH FPQSTNARSE AQFIANTDSQ YLVPTSGDPL RGLIQDHVVM GVWLTCKDTF YTRDEYQQLL FQALKPDE T GMYGRIKTLP PAIQRPGIYW TGKQIISSVL LNLKPSDRPG LNLKSKAKVP GKYWSPDSEE GSVLFDDGEL LCGILDKSS FGASAFGLVH SVHELYGPDI AGRLLSVLSR LFTAYAQMRG FTCRMDDLRL DEQGDNWRRQ LLENGKSFGL EAASEYVGLS TDSPIALLN ANLEEVYRDD EKLQGLDAAM KGKMNGLTSS IINKCIPDGL LTKFPYNHMQ TMTVSGAKGS NVNVSQISCL L GQQELEGR RVPLMVSGKS LPSFVPYETS AKSGGFIASR FLTGIAPQEY YFHCMAGREG LIDTAVKTSR SGYLQRCLMK HL EGLCVQY DHTVRDSDGS IVQFHYGEDS LDVTKQKHLT QFEFSAKNYK SLIQKYKVKS VLSAVDSETA SSYAKKALKK PYK YDPVLD KYPPSRYLGS VSEKFQRAVD EYTQKNPDKL IASKKESKLD DSLLNESKFK ALMQLRYQQS LVDPGESVGV LASQ SIGEP STQMTLNTFH FAGFGAKNVT LGIPRLREII MTASANIQTP TMTLRLNDGV SDKRASAFCK EVNKLVLSEV VRQVR VTEK ISGQGSDEQS KTYAIRLDLY SRDEYQDEYG VLQEEIESTF SNRFLKILNR IIKSYLAKSK QRKSGGKDDT VPEVGQ ALK PLEDIDEAPI EGRAQEALED EDNDATNEKM VSRSKQHASY EGPDEADKVA LRQLKGSNKV EDVNMDEEED EGFKSDE SV SDFKERKLLE KQNTVSISER RELQLKTAKE ILSNCKHLDF DYVNGEWATV ELVFPINTEK LLMVSLVEKA CSETVIHE I PGITRCFSKP PDSALDTVPK VITEGVNLKA IWEFYNEISM NDIYTNDIAA ILRIYGVEAA RNAIVHEVSS VFGVYGIAV DPRHLSLIAD YMTFEGGYKA FNRMGIEYNT SPFAKMSFET TCHFLTEAAL RGDVDDLSNP SSRLVVGRVG NFGTGSFDIF TPVVDSPAN

UniProtKB: DNA-directed RNA polymerase I subunit rpa1

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Macromolecule #2: Probable DNA-directed RNA polymerase I subunit RPA2

MacromoleculeName: Probable DNA-directed RNA polymerase I subunit RPA2 / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO / EC number: DNA-directed RNA polymerase
Source (natural)Organism: Schizosaccharomyces pombe (strain 972 / ATCC 24843) (yeast)
Strain: 972 / ATCC 24843
Molecular weightTheoretical: 131.854969 KDa
SequenceString: MSFQTLERER TFKNPPKDGT SFPDLQKAVK PHVDSFNALT NAGLLNYAVK EIGEKCAFDS ITQEEGGALK FGNKISFRVD EVQIAKPML SSRERSSINR KVYPAEARER LTTYKSRLVL KFSWSVNGGP RQSEMREVGM IPIMVRSNRC HLEGLSPAEL I AHKEESEE ...String:
MSFQTLERER TFKNPPKDGT SFPDLQKAVK PHVDSFNALT NAGLLNYAVK EIGEKCAFDS ITQEEGGALK FGNKISFRVD EVQIAKPML SSRERSSINR KVYPAEARER LTTYKSRLVL KFSWSVNGGP RQSEMREVGM IPIMVRSNRC HLEGLSPAEL I AHKEESEE MGGYFIVNGI EKLIRMLILP KRNHPTAIIR PSFANRGTSY SQYGLSIRCV RPDQSSLTNT LHYLNNGVTM FR FHWRKNE YLIPSMMILK ALLETSDKEI FEGIVGKDLG NTFLTDRVEL MLRAYKSYGL YSQTETLQYL GSKFRVVLGV AED LTDVEV GRFLLQKVVL VHLREAKDKF RLLLFMIRKL YALVAGECCA DNPDSPQHQE ILLGGFLYGQ ILKEKIEDWL NSIR AQINL DVRRSAPGVD FSDRKYLTRV FSKINNDIGT KLQYFLSTGN LVSNTGLDLQ QATGYTVVAE KLNFYRFLSH FRMVH RGAF FAELKTTTVR KLLPEAWGFM CPVHTPDGSP CGLLNHLARK CEIVTHPSDV SQIPSLLLSL GVDPPSVVGH ESGWGC VQL DGKIVGWCTY KLAKHVADVL RLMKIEYAVK LRNGTATEPA KVPLDLEIGY VPPSHNGQYP GLYLFSNPAR MVRPVKH IS TGELDMLGPF EQVYMDIACF PKEIVPKVST HVEYSPTNVL SIVANMTPFS DFNQSPRNMY QCQMGKQTMG TPGTALRY R TDNKLYRLQT GQTPVVRPKL HNTYGLDHYP NGTNAVVAVI SYTGYDMEDA MILNKSAHER GFGYGTVYKG ESFDLSQKR RRGEPVVHHF GFAPGSTPRR EWLQKLDADG LPFIGIKLED GDPIVAYYDE STGQNFIETY HGTEPGFVDE VRLLGNDVGD SECQQIHVK LRITRSPIIG DKFSSRHGQK GICSQKWPTV DMPFTESGMQ PDIIINPHAF PSRMTIGMFI ESLAGKAGAC H GLAQDSTP FIYSEQQTAA DYFGEQLVKA GYNYHGNEPM YSGITGQEMK ADIYIGVVYY QRLRHMVSDK FQVRTTGPIH NL TRQPVKG RKRAGGIRFG EMERDAVIGH GTSFLMQDRL MNCSDYAQSW VCRDCGSIIS IMSTISMNGV GSASEVRCRS CAK PALGLE DTSDIWQDGS GKKFVGGTNT TLIALPSVFN YLTAELTAMN IKMMLEVK

UniProtKB: Probable DNA-directed RNA polymerase I subunit RPA2

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Macromolecule #3: DNA-directed RNA polymerases I and III subunit RPAC1

MacromoleculeName: DNA-directed RNA polymerases I and III subunit RPAC1 / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Schizosaccharomyces pombe (strain 972 / ATCC 24843) (yeast)
Strain: 972 / ATCC 24843
Molecular weightTheoretical: 39.205547 KDa
SequenceString: MAAVDRSRTE ISVLSDRVTD VGSVDFPGYY FDEDNIWDLD KFKKNLKVSI TSLDQETMVF EISGIDASIA NAFRRILIAE IPTLAFEFV YIINNTSIIQ DEVLSHRIGL VPISADPDMF KWFQHPLPGQ EATHTDYDTV VFSLNKKCEF NKNAATDEKD P KRLYVNSE ...String:
MAAVDRSRTE ISVLSDRVTD VGSVDFPGYY FDEDNIWDLD KFKKNLKVSI TSLDQETMVF EISGIDASIA NAFRRILIAE IPTLAFEFV YIINNTSIIQ DEVLSHRIGL VPISADPDMF KWFQHPLPGQ EATHTDYDTV VFSLNKKCEF NKNAATDEKD P KRLYVNSE VYSGDLIWKP QGRQEERFAD NPIRVVNPDI VVAKLRPGQE IDLEAHAILG IGQDHAKFSP VATASYRLLP TI HILSPIE GEDAVKFQKC FPKGVIELEE GPDGKKQARV ADVRKDTVSR ECLRHPEFAD KVQLGRVRDH YLFSVESTGI MKP DVLFIK SIAVLKSKCL AVKSSLQNIS SD

UniProtKB: DNA-directed RNA polymerases I and III subunit RPAC1

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Macromolecule #4: DNA-directed RNA polymerase I subunit rpa14

MacromoleculeName: DNA-directed RNA polymerase I subunit rpa14 / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Schizosaccharomyces pombe (strain 972 / ATCC 24843) (yeast)
Strain: 972 / ATCC 24843
Molecular weightTheoretical: 17.008439 KDa
SequenceString:
MATECPPKMI LRKSEKLDKD ASSKFLNRYI QTIERFQDEK SGSESVLSQL NRVLMYLKGE EIPLISLNLP VQGPPTEELI IPPEEMLET KEEESLKHAR EENDDLHLDK ETKKRLKKEK KKAARREKEE ARKAKADTTQ GVGEKEQS

UniProtKB: DNA-directed RNA polymerase I subunit rpa14

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Macromolecule #5: DNA-directed RNA polymerases I, II, and III subunit RPABC1

MacromoleculeName: DNA-directed RNA polymerases I, II, and III subunit RPABC1
type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Schizosaccharomyces pombe (strain 972 / ATCC 24843) (yeast)
Strain: 972 / ATCC 24843
Molecular weightTheoretical: 23.954504 KDa
SequenceString: MSAEEKNIVR VFRAWKTAHQ LVHDRGYGVS QAELDLTLDQ FKAMHCGMGR NLDRTTLSFY AKPSNDSNKG TIYIEFAKEP SVGIKEMRT FVHTLGDHNH KTGILIYANS MTPSAAKIIA TVTGQFTIET FQESDLIVNI THHELVPKHI LLSPDEKKEL L DRYKLRET ...String:
MSAEEKNIVR VFRAWKTAHQ LVHDRGYGVS QAELDLTLDQ FKAMHCGMGR NLDRTTLSFY AKPSNDSNKG TIYIEFAKEP SVGIKEMRT FVHTLGDHNH KTGILIYANS MTPSAAKIIA TVTGQFTIET FQESDLIVNI THHELVPKHI LLSPDEKKEL L DRYKLRET QLPRIQLADP VARYLGLKRG EVVKIVRRSE TSGRYNSYRI CA

UniProtKB: DNA-directed RNA polymerases I, II, and III subunit RPABC1

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Macromolecule #6: DNA-directed RNA polymerases I, II, and III subunit RPABC2

MacromoleculeName: DNA-directed RNA polymerases I, II, and III subunit RPABC2
type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Schizosaccharomyces pombe (strain 972 / ATCC 24843) (yeast)
Strain: 972 / ATCC 24843
Molecular weightTheoretical: 15.742497 KDa
SequenceString:
MSDYEEDEAF GMDGAVMEEE VDELEMIDEN GQSQQGVSHP GEPSTTVITE DVASSKTAQS GKAVAKEDRT TTPYMTKYER ARILGTRAL QISMNAPVLV DLEGETDPLQ IAMKELAQKK IPLLVRRYLP DGSYEDWSVA ELI

UniProtKB: DNA-directed RNA polymerases I, II, and III subunit RPABC2

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Macromolecule #7: DNA-directed RNA polymerase I subunit rpa43

MacromoleculeName: DNA-directed RNA polymerase I subunit rpa43 / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Schizosaccharomyces pombe (strain 972 / ATCC 24843) (yeast)
Strain: 972 / ATCC 24843
Molecular weightTheoretical: 19.406354 KDa
SequenceString:
MPDLSLYKQT VDLYLSIAPG HSRDPLNAIQ EHMDSMILSK LPRINGIVLA YDNIRFLEKS AKVMYDSPFS FIWVRVDVLV FSPKKGDCL EGKINLVSPS HIGLLILGIF NASIPRKSIP KDWIFIEPDT TEEQGRWKTN DGNILEPGKD LEFVVDGIQR E AGLTMVQG TLANS

UniProtKB: DNA-directed RNA polymerase I subunit rpa43

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Macromolecule #8: DNA-directed RNA polymerases I, II, and III subunit RPABC3

MacromoleculeName: DNA-directed RNA polymerases I, II, and III subunit RPABC3
type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Schizosaccharomyces pombe (strain 972 / ATCC 24843) (yeast)
Strain: 972 / ATCC 24843
Molecular weightTheoretical: 14.317318 KDa
SequenceString:
MSESVLLDEI FTVTSVDKQK YQRVSRITAV SGQNDMNLTL DINSQIYPLE KDATFSLQIT SNLNSPDLKE AADYIMYGKV YRVEEAKDE KVSVYVSFGG LLMAIEGSHR KLYRLSLDHV YLLLRR

UniProtKB: DNA-directed RNA polymerases I, II, and III subunit RPABC3

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Macromolecule #9: DNA-directed RNA polymerase I subunit RPA12

MacromoleculeName: DNA-directed RNA polymerase I subunit RPA12 / type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Schizosaccharomyces pombe (strain 972 / ATCC 24843) (yeast)
Strain: 972 / ATCC 24843
Molecular weightTheoretical: 13.127667 KDa
SequenceString:
MSAIGSLIFC SECGNLLEST TAQWTTCDQC QSVYPSEQFA NLVVETKSSA SAFPSALKLK HSIVQVESQK EEAATIEEKC PKCGNDHMT FHTLQLRSAD EGSTVFYECP RCAYKFSTNN

UniProtKB: DNA-directed RNA polymerase I subunit RPA12

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Macromolecule #10: DNA-directed RNA polymerases I, II, and III subunit RPABC5

MacromoleculeName: DNA-directed RNA polymerases I, II, and III subunit RPABC5
type: protein_or_peptide / ID: 10 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Schizosaccharomyces pombe (strain 972 / ATCC 24843) (yeast)
Strain: 972 / ATCC 24843
Molecular weightTheoretical: 8.286801 KDa
SequenceString:
MIIPIRCFSC GKVIGDKWDT YLTLLQEDNT EGEALDKLGL QRYCCRRMIL THVDLIEKLL CYNPLSKQKN L

UniProtKB: DNA-directed RNA polymerases I, II, and III subunit RPABC5

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Macromolecule #11: DNA-directed RNA polymerases I and III subunit RPAC2

MacromoleculeName: DNA-directed RNA polymerases I and III subunit RPAC2 / type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Schizosaccharomyces pombe (strain 972 / ATCC 24843) (yeast)
Strain: 972 / ATCC 24843
Molecular weightTheoretical: 13.734478 KDa
SequenceString:
MAAMTDVTDP SSVAMESATE KIIILPGHSA DLTSVTFQIQ KEDHTLGNSL RYVIMKNPEV EFCGYSIPHP SEAKMNFRIQ TAPSTTAVD VLRKGLDDLI DLCDAVTEKF TEQLPRDTST TMEVDG

UniProtKB: DNA-directed RNA polymerases I and III subunit RPAC2

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Macromolecule #12: DNA-directed RNA polymerases I, II, and III subunit RPABC4

MacromoleculeName: DNA-directed RNA polymerases I, II, and III subunit RPABC4
type: protein_or_peptide / ID: 12 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Schizosaccharomyces pombe (strain 972 / ATCC 24843) (yeast)
Strain: 972 / ATCC 24843
Molecular weightTheoretical: 7.216495 KDa
SequenceString:
MNHPTSTGGT AFNPPRPATM IYLCADCGAR NTIQAKEVIR CRECGHRVMY KMRTKRMVQF EAR

UniProtKB: DNA-directed RNA polymerases I, II, and III subunit RPABC4

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Macromolecule #13: ZINC ION

MacromoleculeName: ZINC ION / type: ligand / ID: 13 / Number of copies: 6 / Formula: ZN
Molecular weightTheoretical: 65.409 Da

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

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Sample preparation

BufferpH: 7.8
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: FEI FALCON III (4k x 4k) / Average electron dose: 86.5 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Startup modelType of model: PDB ENTRY
Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.84 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 79313
Initial angle assignmentType: ANGULAR RECONSTITUTION
Final angle assignmentType: ANGULAR RECONSTITUTION

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