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- EMDB-12612: RNA polymerase II core pre-initiation complex with closed promote... -

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Entry
Database: EMDB / ID: EMD-12612
TitleRNA polymerase II core pre-initiation complex with closed promoter DNA in distal position
Map data
SampleRNA polymerase II core pre-initiation complex with closed promoter DNA in distal position
  • RPB1POLR2A
  • DNA-directed RNA polymerase subunit betaPolymerase
  • (DNA-directed RNA polymerase II subunit ...Polymerase) x 5
  • RPOL4c domain-containing protein
  • (DNA-directed RNA polymerases I, II, and III subunit ...RNA polymerase) x 2
  • RNA_pol_L_2 domain-containing protein
  • RNA polymerase II subunit K
  • (Transcription initiation factor ...) x 4
  • (nucleic-acidNucleic acid) x 2
  • TATA-box-binding protein
  • (General transcription factor IIF subunit ...) x 2
  • General transcription factor IIE subunit 1
  • (ligand) x 2
Function / homology
Function and homology information


RNA Polymerase I Promoter Escape / RNA Polymerase III Transcription Initiation From Type 2 Promoter / RNA Polymerase I Transcription Termination / RNA Polymerase III Transcription Initiation From Type 1 Promoter / RNA Polymerase I Transcription Initiation / B-WICH complex positively regulates rRNA expression / RNA polymerase II core complex assembly / TP53 Regulates Transcription of DNA Repair Genes / Estrogen-dependent gene expression / RNA Pol II CTD phosphorylation and interaction with CE ...RNA Polymerase I Promoter Escape / RNA Polymerase III Transcription Initiation From Type 2 Promoter / RNA Polymerase I Transcription Termination / RNA Polymerase III Transcription Initiation From Type 1 Promoter / RNA Polymerase I Transcription Initiation / B-WICH complex positively regulates rRNA expression / RNA polymerase II core complex assembly / TP53 Regulates Transcription of DNA Repair Genes / Estrogen-dependent gene expression / RNA Pol II CTD phosphorylation and interaction with CE / RNA Polymerase II Transcription Initiation And Promoter Clearance / RNA Polymerase II Transcription Elongation / RNA Polymerase II Transcription Initiation / Processing of Capped Intron-Containing Pre-mRNA / mRNA Capping / RNA Polymerase II Transcription Pre-Initiation And Promoter Opening / RNA Polymerase II Promoter Escape / mRNA Splicing - Major Pathway / mRNA Splicing - Minor Pathway / RNA polymerase II transcribes snRNA genes / FGFR2 alternative splicing / Formation of RNA Pol II elongation complex / Formation of the Early Elongation Complex / RNA Polymerase II Pre-transcription Events / Transcriptional regulation by small RNAs / Gap-filling DNA repair synthesis and ligation in TC-NER / Formation of TC-NER Pre-Incision Complex / Dual incision in TC-NER / transcription factor TFIIE complex / phosphatase activator activity / TFIIF-class transcription factor complex binding / positive regulation of core promoter binding / transcription factor TFIIF complex / transcription open complex formation at RNA polymerase II promoter / transcriptional start site selection at RNA polymerase II promoter / RNA Polymerase III Transcription Initiation From Type 1 Promoter / RNA Polymerase III Transcription Initiation From Type 2 Promoter / RNA Polymerase III Transcription Initiation From Type 3 Promoter / RNA Polymerase III Abortive And Retractive Initiation / RNA polymerase III general transcription initiation factor activity / transcription factor TFIIA complex / Abortive elongation of HIV-1 transcript in the absence of Tat / RNA Polymerase I Transcription Termination / general transcription initiation factor activity / RNA polymerase II general transcription initiation factor binding / nuclear-transcribed mRNA catabolic process, exonucleolytic / RNA Pol II CTD phosphorylation and interaction with CE during HIV infection / RNA Pol II CTD phosphorylation and interaction with CE / FGFR2 alternative splicing / male pronucleus / Formation of the HIV-1 Early Elongation Complex / Formation of the Early Elongation Complex / female pronucleus / Viral Messenger RNA Synthesis / mRNA Capping / recruitment of 3'-end processing factors to RNA polymerase II holoenzyme complex / positive regulation of viral transcription / mRNA export from nucleus in response to heat stress / transcription initiation from RNA polymerase I promoter / thyroid hormone receptor binding / RNA polymerase II preinitiation complex assembly / Processing of Capped Intron-Containing Pre-mRNA / HIV Transcription Initiation / RNA Polymerase II Transcription Pre-Initiation And Promoter Opening / RNA Polymerase II Promoter Escape / RNA Polymerase II Transcription Initiation / RNA Polymerase II Transcription Initiation And Promoter Clearance / RNA Polymerase II HIV Promoter Escape / Transcription of the HIV genome / termination of RNA polymerase I transcription / Pausing and recovery of Tat-mediated HIV elongation / Tat-mediated HIV elongation arrest and recovery / Signaling by FGFR2 IIIa TM / maintenance of transcriptional fidelity during DNA-templated transcription elongation from RNA polymerase II promoter / positive regulation of nuclear-transcribed mRNA poly(A) tail shortening / Pausing and recovery of HIV elongation / HIV elongation arrest and recovery / positive regulation of gene expression, epigenetic / RNA polymerase II general transcription initiation factor activity / mRNA Splicing - Minor Pathway / snRNA transcription by RNA polymerase II / nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay / transcription factor TFIID complex / RNA Polymerase I Transcription Initiation / RNA polymerase II activity / RNA polymerase II transcribes snRNA genes / Tat-mediated elongation of the HIV-1 transcript / RNA polymerase II complex binding / RNA metabolic process / Formation of HIV-1 elongation complex containing HIV-1 Tat / positive regulation of translational initiation / Formation of HIV elongation complex in the absence of HIV Tat / RNA Polymerase II Transcription Elongation / Formation of RNA Pol II elongation complex / protein acetylation / acetyltransferase activity / TFIIB-class transcription factor binding / mRNA cleavage / RNA polymerase I complex / RNA polymerase III complex
Similarity search - Function
Transcription factor TFIIE alpha subunit, C-terminal / C-terminal general transcription factor TFIIE alpha / TFIIE beta central core DNA-binding domain profile. / Transcription factor TFIIE beta subunit, DNA-binding domain / TFA2 Winged helix domain 2 / TFA2, Winged helix domain 2 / TFIIE beta subunit core domain / Transcription initiation factor TFIIE, beta subunit / TFIIEalpha/SarR/Rpc3 HTH domain / TFE/IIEalpha-type HTH domain profile. ...Transcription factor TFIIE alpha subunit, C-terminal / C-terminal general transcription factor TFIIE alpha / TFIIE beta central core DNA-binding domain profile. / Transcription factor TFIIE beta subunit, DNA-binding domain / TFA2 Winged helix domain 2 / TFA2, Winged helix domain 2 / TFIIE beta subunit core domain / Transcription initiation factor TFIIE, beta subunit / TFIIEalpha/SarR/Rpc3 HTH domain / TFE/IIEalpha-type HTH domain profile. / Transcription factor E / Transcription initiation factor IIE / TFIIE alpha subunit / Transcription factor TFE/TFIIEalpha HTH domain / Transcription initiation factor IIE subunit alpha, N-terminal / TFIIF beta subunit, HTH domain / TFIIF, beta subunit, N-terminal / TFIIF, beta subunit N-terminus / Transcription initiation factor IIF, beta subunit / TFIIF, beta subunit HTH domain / Transcription initiation factor IIF, alpha subunit (TFIIF-alpha) / Transcription initiation factor IIF, alpha subunit / Transcription Factor IIF, Rap30/Rap74, interaction / Transcription factor IIA, alpha/beta subunit / Transcription factor IIA, alpha/beta subunit / Transcription factor IIA, alpha/beta subunit / Transcription initiation factor IIA, gamma subunit, N-terminal / Transcription initiation factor IIA, gamma subunit, C-terminal / Transcription factor IIA, beta-barrel / Transcription factor IIA, alpha-helical domain / Transcription initiation factor IIA, gamma subunit / Transcription initiation factor IIA, gamma subunit / Transcription initiation factor IIA, gamma subunit, helical domain / Transcription factor TFIIB, conserved site / Transcription factor TFIIB repeat / Transcription factor TFIIB repeat signature. / Transcription factor TFIIB, cyclin-like domain / Zinc finger TFIIB-type profile. / Transcription factor TFIIB / Zinc finger, TFIIB-type / TFIIB zinc-binding / TATA-box binding protein, eukaryotic / TATA-box binding protein, conserved site / Transcription factor TFIID (or TATA-binding protein, TBP) / TATA-box binding protein / Transcription factor TFIID repeat signature. / DNA-directed RNA-polymerase II subunit / RNA polymerase Rpb4/RPC9, core / TBP domain superfamily / Rpb4/RPC9 superfamily / Pol II subunit B9, C-terminal zinc ribbon / RNA polymerase RBP11 / RNA polymerase subunit RPB4/RPC9 / RNA polymerase Rpb4 / RNA polymerase Rpb2, domain 4 / RNA polymerase Rpb2, domain 4 / HRDC-like superfamily / RNA polymerase Rpb7-like , N-terminal / Zinc finger TFIIS-type signature. / SHS2 domain found in N terminus of Rpb7p/Rpc25p/MJ0397 / RNA polymerase Rpb7-like, N-terminal domain superfamily / RNA polymerase Rpb2, domain 5 / Cyclin-like / domain present in cyclins, TFIIB and Retinoblastoma / RNA polymerase Rpb2, domain 5 / Cyclin-like superfamily / RNA polymerases N / 8 Kd subunits signature. / RNA polymerases, subunit N, zinc binding site / RNA polymerases N / 8 kDa subunit / RNA polymerase subunit RPB10 / DNA-directed RNA polymerase, subunit N/Rpb10 / DNA-directed RNA polymerases I, II, and III subunit RPABC4 / DNA-directed RNA polymerase M, 15kDa subunit, conserved site / RNA polymerases M / 15 Kd subunits signature. / DNA-directed RNA polymerase RPB5 subunit, eukaryote/virus / DNA-directed RNA polymerase subunit/transcription factor S / RNA polymerase Rpb5, N-terminal domain / RNA polymerase Rpb5, N-terminal domain superfamily / RNA polymerase, Rpb5, N-terminal / RNA polymerase, Rpb8 / RNA polymerase subunit 8 / RNA polymerase Rpb8 / DNA-directed RNA polymerase, M/15kDa subunit / RNA polymerases M/15 Kd subunit / RNA polymerase subunit 9 / DNA-directed RNA polymerase, subunit RPB6 / DNA directed RNA polymerase, 7 kDa subunit / Transcription factor S-II (TFIIS) / C2C2 Zinc finger / Zinc finger, TFIIS-type / Zinc finger TFIIS-type profile. / RNA polymerase archaeal subunit P/eukaryotic subunit RPABC4 / RNA polymerase subunit CX / DNA-directed RNA polymerase, 30-40kDa subunit, conserved site / RNA polymerases D / 30 to 40 Kd subunits signature. / RNA polymerase Rpb3/Rpb11 dimerisation domain / RNA polymerase Rpb5, C-terminal domain / RNA polymerase, subunit H/Rpb5 C-terminal / Archaeal RpoH /eukaryotic RPB5 RNA polymerase subunit / RPB5-like RNA polymerase subunit superfamily
Similarity search - Domain/homology
General transcription factor IIF subunit 2 / DNA-directed RNA polymerase II subunit RPB9 / Transcription initiation factor IIA subunit 2 / Transcription initiation factor IIA subunit 1 / General transcription factor IIF subunit 1 / Transcription initiation factor IIE subunit beta / General transcription factor IIE subunit 1 / TATA-box-binding protein / DNA-directed RNA polymerases I, II, and III subunit RPABC3 / DNA-directed RNA polymerase II subunit E ...General transcription factor IIF subunit 2 / DNA-directed RNA polymerase II subunit RPB9 / Transcription initiation factor IIA subunit 2 / Transcription initiation factor IIA subunit 1 / General transcription factor IIF subunit 1 / Transcription initiation factor IIE subunit beta / General transcription factor IIE subunit 1 / TATA-box-binding protein / DNA-directed RNA polymerases I, II, and III subunit RPABC3 / DNA-directed RNA polymerase II subunit E / RNA polymerase II subunit K / DNA-directed RNA polymerase II subunit RPB7 / DNA-directed RNA polymerase subunit beta / DNA-directed RNA polymerase II subunit RPB3 / DNA-directed RNA polymerase II subunit F / DNA-directed RNA polymerases I, II, and III subunit RPABC5 / RNA_pol_L_2 domain-containing protein / RNA polymerase II subunit D / Transcription initiation factor IIB
Similarity search - Component
Biological speciesPig (pig) / Homo sapiens (human) / Human mastadenovirus C
Methodsingle particle reconstruction / cryo EM / Resolution: 2.9 Å
AuthorsAibara S / Schilbach S / Cramer P
Funding support Germany, 5 items
OrganizationGrant numberCountry
H2020 Marie Curie Actions of the European Commission894862 Germany
German Research Foundation (DFG)EXC 2067/1 39072994 Germany
German Research Foundation (DFG)SFB860 Germany
German Research Foundation (DFG)SPP2191 Germany
European Research Council (ERC)882357 Germany
CitationJournal: Nature / Year: 2021
Title: Structures of mammalian RNA polymerase II pre-initiation complexes.
Authors: Shintaro Aibara / Sandra Schilbach / Patrick Cramer /
Abstract: The initiation of transcription is a focal point for the regulation of gene activity during mammalian cell differentiation and development. To initiate transcription, RNA polymerase II (Pol II) ...The initiation of transcription is a focal point for the regulation of gene activity during mammalian cell differentiation and development. To initiate transcription, RNA polymerase II (Pol II) assembles with general transcription factors into a pre-initiation complex (PIC) that opens promoter DNA. Previous work provided the molecular architecture of the yeast and human PIC and a topological model for DNA opening by the general transcription factor TFIIH. Here we report the high-resolution cryo-electron microscopy structure of PIC comprising human general factors and Sus scrofa domesticus Pol II, which is 99.9% identical to human Pol II. We determine the structures of PIC with closed and opened promoter DNA at 2.5-2.8 Å resolution, and resolve the structure of TFIIH at 2.9-4.0 Å resolution. We capture the TFIIH translocase XPB in the pre- and post-translocation states, and show that XPB induces and propagates a DNA twist to initiate the opening of DNA approximately 30 base pairs downstream of the TATA box. We also provide evidence that DNA opening occurs in two steps and leads to the detachment of TFIIH from the core PIC, which may stop DNA twisting and enable RNA chain initiation.
History
DepositionMar 16, 2021-
Header (metadata) releaseMay 5, 2021-
Map releaseMay 5, 2021-
UpdateJun 16, 2021-
Current statusJun 16, 2021Processing site: PDBe / Status: Released

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 5
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  • Surface view colored by radius
  • Surface level: 5
  • Imaged by UCSF Chimera
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  • Surface view with fitted model
  • Atomic models: PDB-7nvt
  • Surface level: 5
  • Imaged by UCSF Chimera
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Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

Downloads & links

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Map

FileDownload / File: emd_12612.map.gz / Format: CCP4 / Size: 347.6 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesX (Sec.)Y (Row.)Z (Col.)
1.05 Å/pix.
x 450 pix.
= 472.5 Å
1.05 Å/pix.
x 450 pix.
= 472.5 Å
1.05 Å/pix.
x 450 pix.
= 472.5 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.05 Å
Density
Contour LevelBy AUTHOR: 4.5 / Movie #1: 5
Minimum - Maximum-51.8775 - 75.64485
Average (Standard dev.)-0.0013518347 (±0.9754919)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderZYX
Origin000
Dimensions450450450
Spacing450450450
CellA=B=C: 472.49997 Å
α=β=γ: 90.0 °

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z1.051.051.05
M x/y/z450450450
origin x/y/z0.0000.0000.000
length x/y/z472.500472.500472.500
α/β/γ90.00090.00090.000
start NX/NY/NZ000
NX/NY/NZ450450450
MAP C/R/S321
start NC/NR/NS000
NC/NR/NS450450450
D min/max/mean-51.87775.645-0.001

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Supplemental data

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Segmentation: #1

Fileemd_12612_msk_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

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Additional map: Local resolution filtered map, straight out of Relion...

Fileemd_12612_additional_1.map
AnnotationLocal resolution filtered map, straight out of Relion without sharpening.
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

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Half map: Unfiltered half-map 2

Fileemd_12612_half_map_1.map
AnnotationUnfiltered half-map 2
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

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Half map: Unfiltered half-map 1

Fileemd_12612_half_map_2.map
AnnotationUnfiltered half-map 1
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

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Sample components

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Entire RNA polymerase II core pre-initiation complex with closed promote...

EntireName: RNA polymerase II core pre-initiation complex with closed promoter DNA in distal position
Number of Components: 25

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Component #1: protein, RNA polymerase II core pre-initiation complex with close...

ProteinName: RNA polymerase II core pre-initiation complex with closed promoter DNA in distal position
Recombinant expression: No
MassTheoretical: 880 kDa

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Component #2: protein, RPB1

ProteinName: RPB1POLR2A / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 217.450078 kDa
SourceSpecies: Pig (pig)

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Component #3: protein, DNA-directed RNA polymerase subunit beta

ProteinName: DNA-directed RNA polymerase subunit betaPolymerase / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 134.041422 kDa
SourceSpecies: Pig (pig)

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Component #4: protein, DNA-directed RNA polymerase II subunit RPB3

ProteinName: DNA-directed RNA polymerase II subunit RPB3Polymerase / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 31.439074 kDa
SourceSpecies: Pig (pig)

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Component #5: protein, RPOL4c domain-containing protein

ProteinName: RPOL4c domain-containing protein / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 16.331255 kDa
SourceSpecies: Pig (pig)

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Component #6: protein, DNA-directed RNA polymerase II subunit E

ProteinName: DNA-directed RNA polymerase II subunit EPolymerase / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 24.644318 kDa
SourceSpecies: Pig (pig)

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Component #7: protein, DNA-directed RNA polymerase II subunit F

ProteinName: DNA-directed RNA polymerase II subunit FPolymerase / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 14.477001 kDa
SourceSpecies: Pig (pig)

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Component #8: protein, DNA-directed RNA polymerase II subunit RPB7

ProteinName: DNA-directed RNA polymerase II subunit RPB7Polymerase / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 19.314283 kDa
SourceSpecies: Pig (pig)

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Component #9: protein, DNA-directed RNA polymerases I, II, and III subunit RPABC3

ProteinName: DNA-directed RNA polymerases I, II, and III subunit RPABC3RNA polymerase
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 17.162273 kDa
SourceSpecies: Pig (pig)

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Component #10: protein, DNA-directed RNA polymerase II subunit RPB9

ProteinName: DNA-directed RNA polymerase II subunit RPB9Polymerase / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 14.541221 kDa
SourceSpecies: Pig (pig)

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Component #11: protein, DNA-directed RNA polymerases I, II, and III subunit RPABC5

ProteinName: DNA-directed RNA polymerases I, II, and III subunit RPABC5RNA polymerase
Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 7.655123 kDa
SourceSpecies: Pig (pig)

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Component #12: protein, RNA_pol_L_2 domain-containing protein

ProteinName: RNA_pol_L_2 domain-containing protein / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 13.310284 kDa
SourceSpecies: Pig (pig)

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Component #13: protein, RNA polymerase II subunit K

ProteinName: RNA polymerase II subunit K / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 7.018244 kDa
SourceSpecies: Pig (pig)

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Component #14: protein, Transcription initiation factor IIB

ProteinName: Transcription initiation factor IIB / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 34.877949 kDa
SourceSpecies: Homo sapiens (human)
Source (engineered)Expression System: Escherichia coli (E. coli)

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Component #15: nucleic-acid, Non-Template DNA

nucleic acidName: Non-Template DNA / Class: DNA / Structure: OTHER / Synthetic: No
Sequence: (DC)(DG)(DG)(DG)(DT)(DG)(DT)(DT)(DC)(DC) (DT)(DG)(DA)(DA)(DG)(DG)(DG)(DG)(DG)(DG) (DC)(DT)(DA)(DT)(DA)(DA)(DA)(DA)(DG)(DG) (DG)(DG)(DG)(DT)(DG)(DG)(DG)(DG)(DG)(DC) (DG)(DC)(DG)(DT)(DT)(DC) ...Sequence:
(DC)(DG)(DG)(DG)(DT)(DG)(DT)(DT)(DC)(DC) (DT)(DG)(DA)(DA)(DG)(DG)(DG)(DG)(DG)(DG) (DC)(DT)(DA)(DT)(DA)(DA)(DA)(DA)(DG)(DG) (DG)(DG)(DG)(DT)(DG)(DG)(DG)(DG)(DG)(DC) (DG)(DC)(DG)(DT)(DT)(DC)(DG)(DT)(DC)(DC) (DT)(DC)(DA)(DC)(DT)(DC)(DT)(DC)(DT)(DT) (DC)(DC)(DG)(DC)(DA)(DT)(DC)(DG)(DC)(DT) (DG)(DT)(DC)(DT)(DG)(DC)(DG)(DA)(DG)(DG) (DG)(DC)(DC)(DA)(DG)(DC)(DT)(DG)(DT)(DT) (DG)(DG)(DG)(DG)(DT)(DG)(DA)(DG)(DT)(DA) (DC)(DT)(DC)(DC)(DC)(DT)
MassTheoretical: 32.911859 kDa
SourceSpecies: Human mastadenovirus C

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Component #16: protein, TATA-box-binding protein

ProteinName: TATA-box-binding protein / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 37.729938 kDa
SourceSpecies: Homo sapiens (human)
Source (engineered)Expression System: Trichoplusia ni (cabbage looper)

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Component #17: protein, General transcription factor IIF subunit 1

ProteinName: General transcription factor IIF subunit 1 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 58.343578 kDa
SourceSpecies: Homo sapiens (human)
Source (engineered)Expression System: Escherichia coli (E. coli)

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Component #18: protein, General transcription factor IIF subunit 2

ProteinName: General transcription factor IIF subunit 2 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 28.427309 kDa
SourceSpecies: Homo sapiens (human)
Source (engineered)Expression System: Escherichia coli (E. coli)

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Component #19: nucleic-acid, Template DNA

nucleic acidName: Template DNA / Class: DNA / Structure: OTHER / Synthetic: No
Sequence: (DA)(DG)(DG)(DG)(DA)(DG)(DT)(DA)(DC)(DT) (DC)(DA)(DC)(DC)(DC)(DC)(DA)(DA)(DC)(DA) (DG)(DC)(DT)(DG)(DG)(DC)(DC)(DC)(DT)(DC) (DG)(DC)(DA)(DG)(DA)(DC)(DA)(DG)(DC)(DG) (DA)(DT)(DG)(DC)(DG)(DG) ...Sequence:
(DA)(DG)(DG)(DG)(DA)(DG)(DT)(DA)(DC)(DT) (DC)(DA)(DC)(DC)(DC)(DC)(DA)(DA)(DC)(DA) (DG)(DC)(DT)(DG)(DG)(DC)(DC)(DC)(DT)(DC) (DG)(DC)(DA)(DG)(DA)(DC)(DA)(DG)(DC)(DG) (DA)(DT)(DG)(DC)(DG)(DG)(DA)(DA)(DG)(DA) (DG)(DA)(DG)(DT)(DG)(DA)(DG)(DG)(DA)(DC) (DG)(DA)(DA)(DC)(DG)(DC)(DG)(DC)(DC)(DC) (DC)(DC)(DA)(DC)(DC)(DC)(DC)(DC)(DT)(DT) (DT)(DT)(DA)(DT)(DA)(DG)(DC)(DC)(DC)(DC) (DC)(DC)(DT)(DT)(DC)(DA)(DG)(DG)(DA)(DA) (DC)(DA)(DC)(DC)(DC)(DG)
MassTheoretical: 32.508752 kDa
SourceSpecies: Human mastadenovirus C

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Component #20: protein, Transcription initiation factor IIA subunit 1

ProteinName: Transcription initiation factor IIA subunit 1 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 41.544551 kDa
SourceSpecies: Homo sapiens (human)
Source (engineered)Expression System: Trichoplusia ni (cabbage looper)

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Component #21: protein, Transcription initiation factor IIA subunit 2

ProteinName: Transcription initiation factor IIA subunit 2 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 12.469091 kDa
SourceSpecies: Homo sapiens (human)
Source (engineered)Expression System: Trichoplusia ni (cabbage looper)

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Component #22: protein, General transcription factor IIE subunit 1

ProteinName: General transcription factor IIE subunit 1 / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 49.516094 kDa
SourceSpecies: Homo sapiens (human)
Source (engineered)Expression System: Escherichia coli (E. coli)

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Component #23: protein, Transcription initiation factor IIE subunit beta

ProteinName: Transcription initiation factor IIE subunit beta / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 33.106824 kDa
SourceSpecies: Homo sapiens (human)
Source (engineered)Expression System: Trichoplusia ni (cabbage looper)

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Component #24: ligand, ZINC ION

LigandName: ZINC ION / Number of Copies: 10 / Recombinant expression: No
MassTheoretical: 6.540905 MDa

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Component #25: ligand, MAGNESIUM ION

LigandName: MAGNESIUM ION / Number of Copies: 1 / Recombinant expression: No
MassTheoretical: 2.430505 MDa

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Experimental details

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Sample preparation

SpecimenSpecimen State: Particle / Method: cryo EM
Sample solutionpH: 7.5
VitrificationCryogen Name: ETHANE

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Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
ImagingMicroscope: FEI TITAN KRIOS
Electron gunElectron Source: FIELD EMISSION GUN / Accelerating Voltage: 300 kV / Electron Dose: 41.1 e/Å2 / Illumination Mode: FLOOD BEAM
LensImaging Mode: BRIGHT FIELD
Specimen HolderModel: OTHER
CameraDetector: OTHER

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Image processing

ProcessingMethod: single particle reconstruction / Number of Projections: 50177
3D reconstructionResolution: 2.9 Å / Resolution Method: FSC 0.143 CUT-OFF
FSC plot (resolution estimation)

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Atomic model buiding

Output model

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