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- EMDB-14428: Structure of transcription factor UAF in complex with TBP and 35S... -

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Basic information

Entry
Database: EMDB / ID: EMD-14428
TitleStructure of transcription factor UAF in complex with TBP and 35S rRNA promoter DNA
Map dataPost-processed with deepEMhancer using highres target
Sample
  • Complex: Upstream Activating Factor (UAF) bound to TBP and promoter DNA
    • Protein or peptide: Histone H3
    • Protein or peptide: Histone H4
    • Protein or peptide: RNA polymerase I-specific transcription initiation factor RRN5
    • Protein or peptide: RNA polymerase I-specific transcription initiation factor RRN9
    • Protein or peptide: RNA polymerase I-specific transcription initiation factor RRN10
    • Protein or peptide: Upstream activation factor subunit UAF30
    • Protein or peptide: TATA-box-binding protein
    • DNA: Non-template DNA
    • DNA: Template DNA
KeywordsTranscription Factor / Nucleolus / Histone Fold / TRANSCRIPTION
Function / homology
Function and homology information


RNA polymerase I cis-regulatory region sequence-specific DNA binding / sexual sporulation resulting in formation of a cellular spore / cupric reductase (NADH) activity / HATs acetylate histones / global genome nucleotide-excision repair / RNA polymerase I upstream activating factor complex / TFIIA-class transcription factor complex binding / transcription factor TFIIIB complex / RNA polymerase III preinitiation complex assembly / Condensation of Prophase Chromosomes ...RNA polymerase I cis-regulatory region sequence-specific DNA binding / sexual sporulation resulting in formation of a cellular spore / cupric reductase (NADH) activity / HATs acetylate histones / global genome nucleotide-excision repair / RNA polymerase I upstream activating factor complex / TFIIA-class transcription factor complex binding / transcription factor TFIIIB complex / RNA polymerase III preinitiation complex assembly / Condensation of Prophase Chromosomes / RNA polymerase III transcription regulatory region sequence-specific DNA binding / SIRT1 negatively regulates rRNA expression / Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3 / Assembly of the ORC complex at the origin of replication / regulation of transcription by RNA polymerase III / RNA polymerase I general transcription initiation factor activity / HDACs deacetylate histones / RNA polymerase I general transcription initiation factor binding / Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks / transcription factor TFIIA complex / RNA polymerase I preinitiation complex assembly / replication fork protection complex / Oxidative Stress Induced Senescence / RMTs methylate histone arginines / SUMOylation of chromatin organization proteins / DNA binding, bending / RNA Polymerase III Transcription Initiation From Type 2 Promoter / RNA polymerase II transcribes snRNA genes / transcription factor TFIID complex / 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 II general transcription initiation factor activity / RNA Polymerase II Pre-transcription Events / positive regulation of transcription by RNA polymerase I / RNA Polymerase I Promoter Escape / nucleolar large rRNA transcription by RNA polymerase I / transcription initiation at RNA polymerase I promoter / rRNA transcription / Estrogen-dependent gene expression / intracellular copper ion homeostasis / RNA polymerase II core promoter sequence-specific DNA binding / CENP-A containing nucleosome / RNA polymerase II preinitiation complex assembly / TBP-class protein binding / aerobic respiration / DNA-templated transcription initiation / structural constituent of chromatin / disordered domain specific binding / nucleosome / nucleosome assembly / chromatin organization / DNA-binding transcription factor binding / RNA polymerase II-specific DNA-binding transcription factor binding / transcription regulator complex / protein heterodimerization activity / negative regulation of DNA-templated transcription / chromatin binding / regulation of DNA-templated transcription / nucleolus / positive regulation of transcription by RNA polymerase II / protein-containing complex / DNA binding / nucleoplasm / identical protein binding / nucleus
Similarity search - Function
RNA polymerase I-specific transcription initiation factor Rrn10, Saccharomycetes / Rrn9 domain / RNA polymerase I-specific transcription initiation factor Rrn10 / RNA polymerase I-specific transcription initiation factor Rrn5 / UAF complex subunit Rrn10 / RNA polymerase I specific transcription initiation factor / DEK C terminal domain / DEK, C-terminal / DEK C-terminal (DEK-C) domain profile. / SWIB domain ...RNA polymerase I-specific transcription initiation factor Rrn10, Saccharomycetes / Rrn9 domain / RNA polymerase I-specific transcription initiation factor Rrn10 / RNA polymerase I-specific transcription initiation factor Rrn5 / UAF complex subunit Rrn10 / RNA polymerase I specific transcription initiation factor / DEK C terminal domain / DEK, C-terminal / DEK C-terminal (DEK-C) domain profile. / SWIB domain / SWI complex, BAF60b domains / SWIB/MDM2 domain / SWIB/MDM2 domain / SWIB/MDM2 domain profile. / SWIB/MDM2 domain superfamily / TATA-box binding protein, eukaryotic / TATA-box binding protein / TATA-box binding protein, conserved site / Transcription factor TFIID (or TATA-binding protein, TBP) / Transcription factor TFIID repeat signature. / TBP domain superfamily / Histone H4, conserved site / Histone H4 signature. / Histone H4 / Histone H4 / CENP-T/Histone H4, histone fold / Centromere kinetochore component CENP-T histone fold / Histone H3 signature 1. / Histone H3 signature 2. / Histone H3 / Histone H3/CENP-A / Histone H2A/H2B/H3 / Core histone H2A/H2B/H3/H4 / Histone-fold
Similarity search - Domain/homology
Histone H4 / TATA-box-binding protein / RNA polymerase I-specific transcription initiation factor RRN10 / RNA polymerase I-specific transcription initiation factor RRN9 / Histone H3 / RNA polymerase I-specific transcription initiation factor RRN5 / Upstream activation factor subunit UAF30
Similarity search - Component
Biological speciesSaccharomyces cerevisiae (brewer's yeast)
Methodsingle particle reconstruction / cryo EM / Resolution: 2.8 Å
AuthorsBaudin F / Murciano B
Funding support Germany, 1 items
OrganizationGrant numberCountry
EIPOD fellowship under Marie Sklodowska-Curie Actions COFUND664726 Germany
CitationJournal: Sci Adv / Year: 2022
Title: Mechanism of RNA polymerase I selection by transcription factor UAF.
Authors: Florence Baudin / Brice Murciano / Herman K H Fung / Simon A Fromm / Simone Mattei / Julia Mahamid / Christoph W Müller /
Abstract: Preribosomal RNA is selectively transcribed by RNA polymerase (Pol) I in eukaryotes. The yeast transcription factor upstream activating factor (UAF) represses Pol II transcription and mediates Pol I ...Preribosomal RNA is selectively transcribed by RNA polymerase (Pol) I in eukaryotes. The yeast transcription factor upstream activating factor (UAF) represses Pol II transcription and mediates Pol I preinitiation complex (PIC) formation at the 35 ribosomal RNA gene. To visualize the molecular intermediates toward PIC formation, we determined the structure of UAF in complex with native promoter DNA and transcription factor TATA-box-binding protein (TBP). We found that UAF recognizes DNA using a hexameric histone-like scaffold with markedly different interactions compared with the nucleosome and the histone-fold-rich transcription factor IID (TFIID). In parallel, UAF positions TBP for Core Factor binding, which leads to Pol I recruitment, while sequestering it from DNA and Pol II/III-specific transcription factors. Our work thus reveals the structural basis of RNA Pol selection by a transcription factor.
History
DepositionFeb 23, 2022-
Header (metadata) releaseApr 27, 2022-
Map releaseApr 27, 2022-
UpdateJul 17, 2024-
Current statusJul 17, 2024Processing site: PDBe / Status: Released

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Structure visualization

Supplemental images

emd_14428.png

Downloads & links

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Map

FileDownload / File: emd_14428.map.gz / Format: CCP4 / Size: 343 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
AnnotationPost-processed with deepEMhancer using highres target
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.65 Å/pix.
x 448 pix.
= 288.96 Å		0.65 Å/pix.
x 448 pix.
= 288.96 Å		0.65 Å/pix.
x 448 pix.
= 288.96 Å

Surface

Projections

Slices (1/3)

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Images are generated by Spider.

Voxel sizeX=Y=Z: 0.645 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.15
Minimum - Maximum-0.05549085 - 1.9614943
Average (Standard dev.)0.0008388458 (±0.01903187)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions448448448
Spacing448448448
CellA=B=C: 288.96 Å
α=β=γ: 90.0 °

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Supplemental data

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Mask #1

Fileemd_14428_msk_1.map
Projections & Slices
AxesZYX

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Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Additional map: Consensus refinement map after focused classification at the...

Fileemd_14428_additional_1.map
AnnotationConsensus refinement map after focused classification at the upstream region of the UAF-TBP-DNA complex
Projections & Slices
AxesZYX

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Slices (1/2)
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Histogram

Histogram (log scale)

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Half map: Half map 2, unfiltered

Fileemd_14428_half_map_1.map
AnnotationHalf map 2, unfiltered
Projections & Slices
AxesZYX

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Density Histograms

Histogram

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Half map: Half map 1, unfiltered

Fileemd_14428_half_map_2.map
AnnotationHalf map 1, unfiltered
Projections & Slices
AxesZYX

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Slices (1/2)
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Sample components

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Entire : Upstream Activating Factor (UAF) bound to TBP and promoter DNA

EntireName: Upstream Activating Factor (UAF) bound to TBP and promoter DNA
Components
  • Complex: Upstream Activating Factor (UAF) bound to TBP and promoter DNA
    • Protein or peptide: Histone H3
    • Protein or peptide: Histone H4
    • Protein or peptide: RNA polymerase I-specific transcription initiation factor RRN5
    • Protein or peptide: RNA polymerase I-specific transcription initiation factor RRN9
    • Protein or peptide: RNA polymerase I-specific transcription initiation factor RRN10
    • Protein or peptide: Upstream activation factor subunit UAF30
    • Protein or peptide: TATA-box-binding protein
    • DNA: Non-template DNA
    • DNA: Template DNA

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Supramolecule #1: Upstream Activating Factor (UAF) bound to TBP and promoter DNA

SupramoleculeName: Upstream Activating Factor (UAF) bound to TBP and promoter DNA
type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Saccharomyces cerevisiae (brewer's yeast)

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Macromolecule #1: Histone H3

MacromoleculeName: Histone H3 / type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Saccharomyces cerevisiae (brewer's yeast) / Strain: ATCC 204508 / S288c
Molecular weightTheoretical: 15.391007 KDa
Recombinant expressionOrganism: Escherichia coli BL21(DE3) (bacteria)
SequenceString:
MARTKQTARK STGGKAPRKQ LASKAARKSA PSTGGVKKPH RYKPGTVALR EIRRFQKSTE LLIRKLPFQR LVREIAQDFK TDLRFQSSA IGALQESVEA YLVSLFEDTN LAAIHAKRVT IQKKDIKLAR RLRGERS

UniProtKB: Histone H3

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Macromolecule #2: Histone H4

MacromoleculeName: Histone H4 / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Saccharomyces cerevisiae (brewer's yeast) / Strain: ATCC 204508 / S288c
Molecular weightTheoretical: 11.39539 KDa
Recombinant expressionOrganism: Escherichia coli BL21(DE3) (bacteria)
SequenceString:
MSGRGKGGKG LGKGGAKRHR KILRDNIQGI TKPAIRRLAR RGGVKRISGL IYEEVRAVLK SFLESVIRDS VTYTEHAKRK TVTSLDVVY ALKRQGRTLY GFGG

UniProtKB: Histone H4

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Macromolecule #3: RNA polymerase I-specific transcription initiation factor RRN5

MacromoleculeName: RNA polymerase I-specific transcription initiation factor RRN5
type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Saccharomyces cerevisiae (brewer's yeast) / Strain: ATCC 204508 / S288c
Molecular weightTheoretical: 41.873906 KDa
Recombinant expressionOrganism: Escherichia coli BL21(DE3) (bacteria)
SequenceString: SMEHQQLRKY VELYNKEVEE FYNGAASGRP AEFHPSKVHV KSIHEKAGTA NAGVEISSVG VDWDSEEKNT FFWCLSRYSI HRVDEWRSL LPRKSAMEIL GYYRLLRRAS ASARSRKAGD DGAPIAYEMS AEWVALETKL SETVMAITEG AAEVADEEGH C EGLIDYES ...String:
SMEHQQLRKY VELYNKEVEE FYNGAASGRP AEFHPSKVHV KSIHEKAGTA NAGVEISSVG VDWDSEEKNT FFWCLSRYSI HRVDEWRSL LPRKSAMEIL GYYRLLRRAS ASARSRKAGD DGAPIAYEMS AEWVALETKL SETVMAITEG AAEVADEEGH C EGLIDYES WKRRWVAIYS HSRIAEIRPL PRHALPLSRS ATQTLERCVS RYTRTLLWCT ALAGMASRSV SARAAESRGH KS LPTVVTR RQVERALCTE ARSRDLHVLP RRIVLTLRKW ELDYPREGKL FRTKEMAHLF LQSQLSRRDA PPVHQDENQE NQE NQENQE QDNTASEGES EAERDEIDEA DLFRSALHEN QLLKWLSK

UniProtKB: RNA polymerase I-specific transcription initiation factor RRN5

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Macromolecule #4: RNA polymerase I-specific transcription initiation factor RRN9

MacromoleculeName: RNA polymerase I-specific transcription initiation factor RRN9
type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Saccharomyces cerevisiae (brewer's yeast) / Strain: ATCC 204508 / S288c
Molecular weightTheoretical: 42.964336 KDa
Recombinant expressionOrganism: Escherichia coli BL21(DE3) (bacteria)
SequenceString: SMSDLDEESQ IETQIDAPIE DIIRGSELTT TTADKETLKS ANELLDSLEH SHRVDLSLHL YSAYLLKRLL YKANEKKHFY EVNQFVKTQ IKDNWTSWPN PNTIIDPSVD KLYEDIPEGI ANVSVQPGEI SNRALMHASD MMRVELDAQW QKFLSKSALD H DVTLDVDE ...String:
SMSDLDEESQ IETQIDAPIE DIIRGSELTT TTADKETLKS ANELLDSLEH SHRVDLSLHL YSAYLLKRLL YKANEKKHFY EVNQFVKTQ IKDNWTSWPN PNTIIDPSVD KLYEDIPEGI ANVSVQPGEI SNRALMHASD MMRVELDAQW QKFLSKSALD H DVTLDVDE LNIPNEISRN ILVKLDSLFE GLHDKIAKEN EFDVRQDKHS NNIRANQIDD EPMQANRRIK YTYHDLVSRG CE MNEDMTD IYMKSLELYN DIPEKYKKRK FRLPKQILKK YHQPKKTSSY LKELLSKTRE DFIPVEKLLK DKRLTSKDKS KLQ RLNREE TEDALNKRTF FQVKGYLEDE NEISDYELDD CLIELPNGNI

UniProtKB: RNA polymerase I-specific transcription initiation factor RRN9

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Macromolecule #5: RNA polymerase I-specific transcription initiation factor RRN10

MacromoleculeName: RNA polymerase I-specific transcription initiation factor RRN10
type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Saccharomyces cerevisiae (brewer's yeast) / Strain: ATCC 204508 / S288c
Molecular weightTheoretical: 16.525703 KDa
Recombinant expressionOrganism: Escherichia coli BL21(DE3) (bacteria)
SequenceString:
MDRNVYEACS NIIKEFGTHV VSADEVLAEK IDNAVPIPFK TREEIDADVE KDRNEGVFEG NIIPDIDLRV VHYYATQLCL NKYPHLINA FDETSLITLG LLIEKWVKDY LTSIQTEQGR QSKVIGKGPC EFISKHIDYR HAPGNI

UniProtKB: RNA polymerase I-specific transcription initiation factor RRN10

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Macromolecule #6: Upstream activation factor subunit UAF30

MacromoleculeName: Upstream activation factor subunit UAF30 / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Saccharomyces cerevisiae (brewer's yeast) / Strain: ATCC 204508 / S288c
Molecular weightTheoretical: 26.014137 KDa
Recombinant expressionOrganism: Escherichia coli BL21(DE3) (bacteria)
SequenceString: MAELNDYSTM IDILLSDMDL ETVTTKKVRM ALKEVYAIDV ESQGKAINKL IRKHLDLVKE RPRFERSLED LLKENATLAI ELTKEITVS KRSSGEEKND SETKGTHVEK KKGTVSKSPI STRKVTLSKS LASLLGEHEL TRTEVVRRLW AYIKAHNLQN P NNKKEILC ...String:
MAELNDYSTM IDILLSDMDL ETVTTKKVRM ALKEVYAIDV ESQGKAINKL IRKHLDLVKE RPRFERSLED LLKENATLAI ELTKEITVS KRSSGEEKND SETKGTHVEK KKGTVSKSPI STRKVTLSKS LASLLGEHEL TRTEVVRRLW AYIKAHNLQN P NNKKEILC DEKLELILGK STNMFEMHKI LASHMTEPKK ISDCPPLIQE VRRKEKPIVS DSEQSDTKGI

UniProtKB: Upstream activation factor subunit UAF30

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Macromolecule #7: TATA-box-binding protein

MacromoleculeName: TATA-box-binding protein / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Saccharomyces cerevisiae (brewer's yeast) / Strain: ATCC 204508 / S288c
Molecular weightTheoretical: 27.237475 KDa
Recombinant expressionOrganism: Escherichia coli BL21(DE3) (bacteria)
SequenceString: GHMADEERLK EFKEANKIVF DPNTRQVWEN QNRDGTKPAT TFQSEEDIKR AAPESEKDTS ATSGIVPTLQ NIVATVTLGC RLDLKTVAL HARNAEYNPK RFAAVIMRIR EPKTTALIFA SGKMVVTGAK SEDDSKLASR KYARIIQKIG FAAKFTDFKI Q NIVGSCDV ...String:
GHMADEERLK EFKEANKIVF DPNTRQVWEN QNRDGTKPAT TFQSEEDIKR AAPESEKDTS ATSGIVPTLQ NIVATVTLGC RLDLKTVAL HARNAEYNPK RFAAVIMRIR EPKTTALIFA SGKMVVTGAK SEDDSKLASR KYARIIQKIG FAAKFTDFKI Q NIVGSCDV KFPIRLEGLA FSHGTFSSYE PELFPGLIYR MVKPKIVLLI FVSGKIVLTG AKQREEIYQA FEAIYPVLSE FR KM

UniProtKB: TATA-box-binding protein

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Macromolecule #8: Non-template DNA

MacromoleculeName: Non-template DNA / type: dna / ID: 8 / Number of copies: 1 / Classification: DNA
Source (natural)Organism: Saccharomyces cerevisiae (brewer's yeast)
Molecular weightTheoretical: 47.265395 KDa
SequenceString: (DG)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA) (DA)(DT)(DA)(DT)(DA)(DC)(DG)(DC)(DT)(DA) (DA)(DG)(DA)(DT)(DT)(DT)(DT)(DT)(DG) (DG)(DA)(DG)(DA)(DA)(DT)(DA)(DG)(DC)(DT) (DT) (DA)(DA)(DA)(DT)(DT)(DG) ...String:
(DG)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA)(DA) (DA)(DT)(DA)(DT)(DA)(DC)(DG)(DC)(DT)(DA) (DA)(DG)(DA)(DT)(DT)(DT)(DT)(DT)(DG) (DG)(DA)(DG)(DA)(DA)(DT)(DA)(DG)(DC)(DT) (DT) (DA)(DA)(DA)(DT)(DT)(DG)(DA)(DA) (DG)(DT)(DT)(DT)(DT)(DT)(DC)(DT)(DC)(DG) (DG)(DC) (DG)(DA)(DG)(DA)(DA)(DA)(DT) (DA)(DC)(DG)(DT)(DA)(DG)(DT)(DT)(DA)(DA) (DG)(DG)(DC) (DA)(DG)(DA)(DG)(DC)(DG) (DA)(DC)(DA)(DG)(DA)(DG)(DA)(DG)(DG)(DG) (DC)(DA)(DA)(DA) (DA)(DG)(DA)(DA)(DA) (DA)(DT)(DA)(DA)(DA)(DA)(DG)(DT)(DA)(DA) (DG)(DA)(DT)(DT)(DT) (DT)(DA)(DG)(DT) (DT)(DT)(DG)(DT)(DA)(DA)(DT)(DG)(DG)(DG) (DA)(DG)(DG)(DG)(DG)(DG) (DG)(DG)(DT) (DT)(DT)(DA)(DG)(DT)(DC)(DA)(DT)

GENBANK: GENBANK: X87401.1

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Macromolecule #9: Template DNA

MacromoleculeName: Template DNA / type: dna / ID: 9 / Number of copies: 1 / Classification: DNA
Source (natural)Organism: Saccharomyces cerevisiae (brewer's yeast)
Molecular weightTheoretical: 45.924367 KDa
SequenceString: (DA)(DT)(DG)(DA)(DC)(DT)(DA)(DA)(DA)(DC) (DC)(DC)(DC)(DC)(DC)(DC)(DT)(DC)(DC)(DC) (DA)(DT)(DT)(DA)(DC)(DA)(DA)(DA)(DC) (DT)(DA)(DA)(DA)(DA)(DT)(DC)(DT)(DT)(DA) (DC) (DT)(DT)(DT)(DT)(DA)(DT) ...String:
(DA)(DT)(DG)(DA)(DC)(DT)(DA)(DA)(DA)(DC) (DC)(DC)(DC)(DC)(DC)(DC)(DT)(DC)(DC)(DC) (DA)(DT)(DT)(DA)(DC)(DA)(DA)(DA)(DC) (DT)(DA)(DA)(DA)(DA)(DT)(DC)(DT)(DT)(DA) (DC) (DT)(DT)(DT)(DT)(DA)(DT)(DT)(DT) (DT)(DC)(DT)(DT)(DT)(DT)(DG)(DC)(DC)(DC) (DT)(DC) (DT)(DC)(DT)(DG)(DT)(DC)(DG) (DC)(DT)(DC)(DT)(DG)(DC)(DC)(DT)(DT)(DA) (DA)(DC)(DT) (DA)(DC)(DG)(DT)(DA)(DT) (DT)(DT)(DC)(DT)(DC)(DG)(DC)(DC)(DG)(DA) (DG)(DA)(DA)(DA) (DA)(DA)(DC)(DT)(DT) (DC)(DA)(DA)(DT)(DT)(DT)(DA)(DA)(DG)(DC) (DT)(DA)(DT)(DT)(DC) (DT)(DC)(DC)(DA) (DA)(DA)(DA)(DA)(DT)(DC)(DT)(DT)(DA)(DG) (DC)(DG)(DT)(DA)(DT)(DA) (DT)(DT)(DT) (DT)(DT)(DT)(DT)(DT)(DT)(DT)(DC)

GENBANK: GENBANK: X87401.1

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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

Concentration0.3 mg/mL
BufferpH: 7.2
Component:
ConcentrationName
30.0 mMHEPES
30.0 mMSodium Citrate
250.0 mMPotassium Chloride
2.0 mMDTT
0.1 %LMNG
GridModel: UltrAuFoil R1.2/1.3 / Material: GOLD / Mesh: 300 / Support film - Material: GOLD / Support film - topology: HOLEY / Pretreatment - Type: GLOW DISCHARGE
VitrificationCryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 283.15 K / Instrument: FEI VITROBOT MARK IV

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Specialist opticsEnergy filter - Name: GIF Bioquantum / Energy filter - Slit width: 20 eV
Image recordingFilm or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 49.4 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsC2 aperture diameter: 50.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 1.9000000000000001 µm / Nominal defocus min: 0.9 µm
Sample stageSpecimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Startup modelType of model: INSILICO MODEL
Final reconstructionResolution.type: BY AUTHOR / Resolution: 2.8 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: RELION (ver. 3.1.2) / Number images used: 193226
Initial angle assignmentType: MAXIMUM LIKELIHOOD / Software: (Name: cryoSPARC, RELION)
Final angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: RELION (ver. 3.1.2)
Final 3D classificationSoftware - Name: RELION (ver. 3.1.2)
FSC plot (resolution estimation)

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