8bz1

RNA polymerase II core pre-initiation complex with the proximal +1 nucleosome (cPIC-Nuc10W)

Method: ELECTRON MICROSCOPY
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1. Protein Identity and Related Structures Protein Identity & Related Structures

DNA-directed RNA polymerase subunit

OrganismNot specified

UniProt A0A8D1DPV6

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 26 DNA 2 DNA-directed RNA polymerase subunit beta × 1 (I3LGP4) DNA-directed RNA polymerase II subunit RPB3 × 1 (I3LCH3) RNA polymerase II subunit D × 1 (A0A287ADR4) DNA-directed RNA polymerase II subunit E × 1 (I3LSI7) DNA-directed RNA polymerase II subunit F × 1 (F1SKN8) DNA-directed RNA polymerase II subunit RPB7 × 1 (I3LJZ9) DNA-directed RNA polymerases I, II, and III subunit RPABC3 × 1 (I3LCB2) DNA-directed RNA polymerase II subunit RPB9 × 1 (P60899) DNA-directed RNA polymerases I, II, and III subunit RPABC5 × 1 (A0A4X1VYD0) DNA-directed RNA polymerase II subunit RPB11-a × 1 (F1RKE4) RNA polymerase II subunit K × 1 (I3LN51) Transcription initiation factor IIB × 1 (Q00403) Non-template DNA × 1 TATA-box-binding protein × 1 (P20226) General transcription factor IIF subunit 1 × 1 (P35269) General transcription factor IIF subunit 2 × 1 (P13984) Template DNA × 1 Transcription initiation factor IIA subunit 1 × 1 (P52655) Transcription initiation factor IIA subunit 2 × 1 (P52657) Histone H3.2 × 2 (P84233) Histone H4 × 2 (P62799) Histone H2A type 1 × 2 (P06897) Histone H2B 1.1 × 2 (P02281) ZINC ION × 9 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name A0A8D1DPV6_PIG
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–1970; UniProt 1–1970

DNA-directed RNA polymerase subunit beta

OrganismNot specified

UniProt I3LGP4

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 26 DNA 2 DNA-directed RNA polymerase subunit × 1 (A0A8D1DPV6) DNA-directed RNA polymerase II subunit RPB3 × 1 (I3LCH3) RNA polymerase II subunit D × 1 (A0A287ADR4) DNA-directed RNA polymerase II subunit E × 1 (I3LSI7) DNA-directed RNA polymerase II subunit F × 1 (F1SKN8) DNA-directed RNA polymerase II subunit RPB7 × 1 (I3LJZ9) DNA-directed RNA polymerases I, II, and III subunit RPABC3 × 1 (I3LCB2) DNA-directed RNA polymerase II subunit RPB9 × 1 (P60899) DNA-directed RNA polymerases I, II, and III subunit RPABC5 × 1 (A0A4X1VYD0) DNA-directed RNA polymerase II subunit RPB11-a × 1 (F1RKE4) RNA polymerase II subunit K × 1 (I3LN51) Transcription initiation factor IIB × 1 (Q00403) Non-template DNA × 1 TATA-box-binding protein × 1 (P20226) General transcription factor IIF subunit 1 × 1 (P35269) General transcription factor IIF subunit 2 × 1 (P13984) Template DNA × 1 Transcription initiation factor IIA subunit 1 × 1 (P52655) Transcription initiation factor IIA subunit 2 × 1 (P52657) Histone H3.2 × 2 (P84233) Histone H4 × 2 (P62799) Histone H2A type 1 × 2 (P06897) Histone H2B 1.1 × 2 (P02281) ZINC ION × 9 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name I3LGP4_PIG
Isoform —
PDB entities 2
Chains and sequence ranges Author chain B; PDBConstruct 1–1174; UniProt 78–1251

DNA-directed RNA polymerase II subunit RPB3

OrganismNot specified

UniProt I3LCH3

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 26 DNA 2 DNA-directed RNA polymerase subunit × 1 (A0A8D1DPV6) DNA-directed RNA polymerase subunit beta × 1 (I3LGP4) RNA polymerase II subunit D × 1 (A0A287ADR4) DNA-directed RNA polymerase II subunit E × 1 (I3LSI7) DNA-directed RNA polymerase II subunit F × 1 (F1SKN8) DNA-directed RNA polymerase II subunit RPB7 × 1 (I3LJZ9) DNA-directed RNA polymerases I, II, and III subunit RPABC3 × 1 (I3LCB2) DNA-directed RNA polymerase II subunit RPB9 × 1 (P60899) DNA-directed RNA polymerases I, II, and III subunit RPABC5 × 1 (A0A4X1VYD0) DNA-directed RNA polymerase II subunit RPB11-a × 1 (F1RKE4) RNA polymerase II subunit K × 1 (I3LN51) Transcription initiation factor IIB × 1 (Q00403) Non-template DNA × 1 TATA-box-binding protein × 1 (P20226) General transcription factor IIF subunit 1 × 1 (P35269) General transcription factor IIF subunit 2 × 1 (P13984) Template DNA × 1 Transcription initiation factor IIA subunit 1 × 1 (P52655) Transcription initiation factor IIA subunit 2 × 1 (P52657) Histone H3.2 × 2 (P84233) Histone H4 × 2 (P62799) Histone H2A type 1 × 2 (P06897) Histone H2B 1.1 × 2 (P02281) ZINC ION × 9 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name I3LCH3_PIG
Isoform —
PDB entities 3
Chains and sequence ranges Author chain C; PDBConstruct 1–275; UniProt 1–275

RNA polymerase II subunit D

OrganismNot specified

UniProt A0A287ADR4

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 26 DNA 2 DNA-directed RNA polymerase subunit × 1 (A0A8D1DPV6) DNA-directed RNA polymerase subunit beta × 1 (I3LGP4) DNA-directed RNA polymerase II subunit RPB3 × 1 (I3LCH3) DNA-directed RNA polymerase II subunit E × 1 (I3LSI7) DNA-directed RNA polymerase II subunit F × 1 (F1SKN8) DNA-directed RNA polymerase II subunit RPB7 × 1 (I3LJZ9) DNA-directed RNA polymerases I, II, and III subunit RPABC3 × 1 (I3LCB2) DNA-directed RNA polymerase II subunit RPB9 × 1 (P60899) DNA-directed RNA polymerases I, II, and III subunit RPABC5 × 1 (A0A4X1VYD0) DNA-directed RNA polymerase II subunit RPB11-a × 1 (F1RKE4) RNA polymerase II subunit K × 1 (I3LN51) Transcription initiation factor IIB × 1 (Q00403) Non-template DNA × 1 TATA-box-binding protein × 1 (P20226) General transcription factor IIF subunit 1 × 1 (P35269) General transcription factor IIF subunit 2 × 1 (P13984) Template DNA × 1 Transcription initiation factor IIA subunit 1 × 1 (P52655) Transcription initiation factor IIA subunit 2 × 1 (P52657) Histone H3.2 × 2 (P84233) Histone H4 × 2 (P62799) Histone H2A type 1 × 2 (P06897) Histone H2B 1.1 × 2 (P02281) ZINC ION × 9 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name A0A287ADR4_PIG
Isoform —
PDB entities 4
Chains and sequence ranges Author chain D; PDBConstruct 1–142; UniProt 43–184

DNA-directed RNA polymerase II subunit E

OrganismNot specified

UniProt I3LSI7

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 26 DNA 2 DNA-directed RNA polymerase subunit × 1 (A0A8D1DPV6) DNA-directed RNA polymerase subunit beta × 1 (I3LGP4) DNA-directed RNA polymerase II subunit RPB3 × 1 (I3LCH3) RNA polymerase II subunit D × 1 (A0A287ADR4) DNA-directed RNA polymerase II subunit F × 1 (F1SKN8) DNA-directed RNA polymerase II subunit RPB7 × 1 (I3LJZ9) DNA-directed RNA polymerases I, II, and III subunit RPABC3 × 1 (I3LCB2) DNA-directed RNA polymerase II subunit RPB9 × 1 (P60899) DNA-directed RNA polymerases I, II, and III subunit RPABC5 × 1 (A0A4X1VYD0) DNA-directed RNA polymerase II subunit RPB11-a × 1 (F1RKE4) RNA polymerase II subunit K × 1 (I3LN51) Transcription initiation factor IIB × 1 (Q00403) Non-template DNA × 1 TATA-box-binding protein × 1 (P20226) General transcription factor IIF subunit 1 × 1 (P35269) General transcription factor IIF subunit 2 × 1 (P13984) Template DNA × 1 Transcription initiation factor IIA subunit 1 × 1 (P52655) Transcription initiation factor IIA subunit 2 × 1 (P52657) Histone H3.2 × 2 (P84233) Histone H4 × 2 (P62799) Histone H2A type 1 × 2 (P06897) Histone H2B 1.1 × 2 (P02281) ZINC ION × 9 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name I3LSI7_PIG
Isoform —
PDB entities 5
Chains and sequence ranges Author chain E; PDBConstruct 1–210; UniProt 1–210

DNA-directed RNA polymerase II subunit F

OrganismNot specified

UniProt F1SKN8

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 26 DNA 2 DNA-directed RNA polymerase subunit × 1 (A0A8D1DPV6) DNA-directed RNA polymerase subunit beta × 1 (I3LGP4) DNA-directed RNA polymerase II subunit RPB3 × 1 (I3LCH3) RNA polymerase II subunit D × 1 (A0A287ADR4) DNA-directed RNA polymerase II subunit E × 1 (I3LSI7) DNA-directed RNA polymerase II subunit RPB7 × 1 (I3LJZ9) DNA-directed RNA polymerases I, II, and III subunit RPABC3 × 1 (I3LCB2) DNA-directed RNA polymerase II subunit RPB9 × 1 (P60899) DNA-directed RNA polymerases I, II, and III subunit RPABC5 × 1 (A0A4X1VYD0) DNA-directed RNA polymerase II subunit RPB11-a × 1 (F1RKE4) RNA polymerase II subunit K × 1 (I3LN51) Transcription initiation factor IIB × 1 (Q00403) Non-template DNA × 1 TATA-box-binding protein × 1 (P20226) General transcription factor IIF subunit 1 × 1 (P35269) General transcription factor IIF subunit 2 × 1 (P13984) Template DNA × 1 Transcription initiation factor IIA subunit 1 × 1 (P52655) Transcription initiation factor IIA subunit 2 × 1 (P52657) Histone H3.2 × 2 (P84233) Histone H4 × 2 (P62799) Histone H2A type 1 × 2 (P06897) Histone H2B 1.1 × 2 (P02281) ZINC ION × 9 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name F1SKN8_PIG
Isoform —
PDB entities 6
Chains and sequence ranges Author chain F; PDBConstruct 1–127; UniProt 1–127

DNA-directed RNA polymerase II subunit RPB7

OrganismNot specified

UniProt I3LJZ9

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 26 DNA 2 DNA-directed RNA polymerase subunit × 1 (A0A8D1DPV6) DNA-directed RNA polymerase subunit beta × 1 (I3LGP4) DNA-directed RNA polymerase II subunit RPB3 × 1 (I3LCH3) RNA polymerase II subunit D × 1 (A0A287ADR4) DNA-directed RNA polymerase II subunit E × 1 (I3LSI7) DNA-directed RNA polymerase II subunit F × 1 (F1SKN8) DNA-directed RNA polymerases I, II, and III subunit RPABC3 × 1 (I3LCB2) DNA-directed RNA polymerase II subunit RPB9 × 1 (P60899) DNA-directed RNA polymerases I, II, and III subunit RPABC5 × 1 (A0A4X1VYD0) DNA-directed RNA polymerase II subunit RPB11-a × 1 (F1RKE4) RNA polymerase II subunit K × 1 (I3LN51) Transcription initiation factor IIB × 1 (Q00403) Non-template DNA × 1 TATA-box-binding protein × 1 (P20226) General transcription factor IIF subunit 1 × 1 (P35269) General transcription factor IIF subunit 2 × 1 (P13984) Template DNA × 1 Transcription initiation factor IIA subunit 1 × 1 (P52655) Transcription initiation factor IIA subunit 2 × 1 (P52657) Histone H3.2 × 2 (P84233) Histone H4 × 2 (P62799) Histone H2A type 1 × 2 (P06897) Histone H2B 1.1 × 2 (P02281) ZINC ION × 9 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name I3LJZ9_PIG
Isoform —
PDB entities 7
Chains and sequence ranges Author chain G; PDBConstruct 1–172; UniProt 1–172

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

OrganismNot specified

UniProt I3LCB2

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 26 DNA 2 DNA-directed RNA polymerase subunit × 1 (A0A8D1DPV6) DNA-directed RNA polymerase subunit beta × 1 (I3LGP4) DNA-directed RNA polymerase II subunit RPB3 × 1 (I3LCH3) RNA polymerase II subunit D × 1 (A0A287ADR4) DNA-directed RNA polymerase II subunit E × 1 (I3LSI7) DNA-directed RNA polymerase II subunit F × 1 (F1SKN8) DNA-directed RNA polymerase II subunit RPB7 × 1 (I3LJZ9) DNA-directed RNA polymerase II subunit RPB9 × 1 (P60899) DNA-directed RNA polymerases I, II, and III subunit RPABC5 × 1 (A0A4X1VYD0) DNA-directed RNA polymerase II subunit RPB11-a × 1 (F1RKE4) RNA polymerase II subunit K × 1 (I3LN51) Transcription initiation factor IIB × 1 (Q00403) Non-template DNA × 1 TATA-box-binding protein × 1 (P20226) General transcription factor IIF subunit 1 × 1 (P35269) General transcription factor IIF subunit 2 × 1 (P13984) Template DNA × 1 Transcription initiation factor IIA subunit 1 × 1 (P52655) Transcription initiation factor IIA subunit 2 × 1 (P52657) Histone H3.2 × 2 (P84233) Histone H4 × 2 (P62799) Histone H2A type 1 × 2 (P06897) Histone H2B 1.1 × 2 (P02281) ZINC ION × 9 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name I3LCB2_PIG
Isoform —
PDB entities 8
Chains and sequence ranges Author chain H; PDBConstruct 1–150; UniProt 1–150

DNA-directed RNA polymerase II subunit RPB9

OrganismNot specified

UniProt P60899

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 26 DNA 2 DNA-directed RNA polymerase subunit × 1 (A0A8D1DPV6) DNA-directed RNA polymerase subunit beta × 1 (I3LGP4) DNA-directed RNA polymerase II subunit RPB3 × 1 (I3LCH3) RNA polymerase II subunit D × 1 (A0A287ADR4) DNA-directed RNA polymerase II subunit E × 1 (I3LSI7) DNA-directed RNA polymerase II subunit F × 1 (F1SKN8) DNA-directed RNA polymerase II subunit RPB7 × 1 (I3LJZ9) DNA-directed RNA polymerases I, II, and III subunit RPABC3 × 1 (I3LCB2) DNA-directed RNA polymerases I, II, and III subunit RPABC5 × 1 (A0A4X1VYD0) DNA-directed RNA polymerase II subunit RPB11-a × 1 (F1RKE4) RNA polymerase II subunit K × 1 (I3LN51) Transcription initiation factor IIB × 1 (Q00403) Non-template DNA × 1 TATA-box-binding protein × 1 (P20226) General transcription factor IIF subunit 1 × 1 (P35269) General transcription factor IIF subunit 2 × 1 (P13984) Template DNA × 1 Transcription initiation factor IIA subunit 1 × 1 (P52655) Transcription initiation factor IIA subunit 2 × 1 (P52657) Histone H3.2 × 2 (P84233) Histone H4 × 2 (P62799) Histone H2A type 1 × 2 (P06897) Histone H2B 1.1 × 2 (P02281) ZINC ION × 9 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name RPB9_PIG
Isoform —
PDB entities 9
Chains and sequence ranges Author chain I; PDBConstruct 1–125; UniProt 1–125

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

OrganismNot specified

UniProt A0A4X1VYD0

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 26 DNA 2 DNA-directed RNA polymerase subunit × 1 (A0A8D1DPV6) DNA-directed RNA polymerase subunit beta × 1 (I3LGP4) DNA-directed RNA polymerase II subunit RPB3 × 1 (I3LCH3) RNA polymerase II subunit D × 1 (A0A287ADR4) DNA-directed RNA polymerase II subunit E × 1 (I3LSI7) DNA-directed RNA polymerase II subunit F × 1 (F1SKN8) DNA-directed RNA polymerase II subunit RPB7 × 1 (I3LJZ9) DNA-directed RNA polymerases I, II, and III subunit RPABC3 × 1 (I3LCB2) DNA-directed RNA polymerase II subunit RPB9 × 1 (P60899) DNA-directed RNA polymerase II subunit RPB11-a × 1 (F1RKE4) RNA polymerase II subunit K × 1 (I3LN51) Transcription initiation factor IIB × 1 (Q00403) Non-template DNA × 1 TATA-box-binding protein × 1 (P20226) General transcription factor IIF subunit 1 × 1 (P35269) General transcription factor IIF subunit 2 × 1 (P13984) Template DNA × 1 Transcription initiation factor IIA subunit 1 × 1 (P52655) Transcription initiation factor IIA subunit 2 × 1 (P52657) Histone H3.2 × 2 (P84233) Histone H4 × 2 (P62799) Histone H2A type 1 × 2 (P06897) Histone H2B 1.1 × 2 (P02281) ZINC ION × 9 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name A0A4X1VYD0_PIG
Isoform —
PDB entities 10
Chains and sequence ranges Author chain J; PDBConstruct 1–67; UniProt 1–67

DNA-directed RNA polymerase II subunit RPB11-a

OrganismNot specified

UniProt F1RKE4

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 26 DNA 2 DNA-directed RNA polymerase subunit × 1 (A0A8D1DPV6) DNA-directed RNA polymerase subunit beta × 1 (I3LGP4) DNA-directed RNA polymerase II subunit RPB3 × 1 (I3LCH3) RNA polymerase II subunit D × 1 (A0A287ADR4) DNA-directed RNA polymerase II subunit E × 1 (I3LSI7) DNA-directed RNA polymerase II subunit F × 1 (F1SKN8) DNA-directed RNA polymerase II subunit RPB7 × 1 (I3LJZ9) DNA-directed RNA polymerases I, II, and III subunit RPABC3 × 1 (I3LCB2) DNA-directed RNA polymerase II subunit RPB9 × 1 (P60899) DNA-directed RNA polymerases I, II, and III subunit RPABC5 × 1 (A0A4X1VYD0) RNA polymerase II subunit K × 1 (I3LN51) Transcription initiation factor IIB × 1 (Q00403) Non-template DNA × 1 TATA-box-binding protein × 1 (P20226) General transcription factor IIF subunit 1 × 1 (P35269) General transcription factor IIF subunit 2 × 1 (P13984) Template DNA × 1 Transcription initiation factor IIA subunit 1 × 1 (P52655) Transcription initiation factor IIA subunit 2 × 1 (P52657) Histone H3.2 × 2 (P84233) Histone H4 × 2 (P62799) Histone H2A type 1 × 2 (P06897) Histone H2B 1.1 × 2 (P02281) ZINC ION × 9 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name F1RKE4_PIG
Isoform —
PDB entities 11
Chains and sequence ranges Author chain K; PDBConstruct 1–117; UniProt 1–117

RNA polymerase II subunit K

OrganismNot specified

UniProt I3LN51

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 26 DNA 2 DNA-directed RNA polymerase subunit × 1 (A0A8D1DPV6) DNA-directed RNA polymerase subunit beta × 1 (I3LGP4) DNA-directed RNA polymerase II subunit RPB3 × 1 (I3LCH3) RNA polymerase II subunit D × 1 (A0A287ADR4) DNA-directed RNA polymerase II subunit E × 1 (I3LSI7) DNA-directed RNA polymerase II subunit F × 1 (F1SKN8) DNA-directed RNA polymerase II subunit RPB7 × 1 (I3LJZ9) DNA-directed RNA polymerases I, II, and III subunit RPABC3 × 1 (I3LCB2) DNA-directed RNA polymerase II subunit RPB9 × 1 (P60899) DNA-directed RNA polymerases I, II, and III subunit RPABC5 × 1 (A0A4X1VYD0) DNA-directed RNA polymerase II subunit RPB11-a × 1 (F1RKE4) Transcription initiation factor IIB × 1 (Q00403) Non-template DNA × 1 TATA-box-binding protein × 1 (P20226) General transcription factor IIF subunit 1 × 1 (P35269) General transcription factor IIF subunit 2 × 1 (P13984) Template DNA × 1 Transcription initiation factor IIA subunit 1 × 1 (P52655) Transcription initiation factor IIA subunit 2 × 1 (P52657) Histone H3.2 × 2 (P84233) Histone H4 × 2 (P62799) Histone H2A type 1 × 2 (P06897) Histone H2B 1.1 × 2 (P02281) ZINC ION × 9 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name I3LN51_PIG
Isoform —
PDB entities 12
Chains and sequence ranges Author chain L; PDBConstruct 1–58; UniProt 1–58

Transcription initiation factor IIB

Homo sapiens

UniProt Q00403

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 26 DNA 2 DNA-directed RNA polymerase subunit × 1 (A0A8D1DPV6) DNA-directed RNA polymerase subunit beta × 1 (I3LGP4) DNA-directed RNA polymerase II subunit RPB3 × 1 (I3LCH3) RNA polymerase II subunit D × 1 (A0A287ADR4) DNA-directed RNA polymerase II subunit E × 1 (I3LSI7) DNA-directed RNA polymerase II subunit F × 1 (F1SKN8) DNA-directed RNA polymerase II subunit RPB7 × 1 (I3LJZ9) DNA-directed RNA polymerases I, II, and III subunit RPABC3 × 1 (I3LCB2) DNA-directed RNA polymerase II subunit RPB9 × 1 (P60899) DNA-directed RNA polymerases I, II, and III subunit RPABC5 × 1 (A0A4X1VYD0) DNA-directed RNA polymerase II subunit RPB11-a × 1 (F1RKE4) RNA polymerase II subunit K × 1 (I3LN51) Non-template DNA × 1 TATA-box-binding protein × 1 (P20226) General transcription factor IIF subunit 1 × 1 (P35269) General transcription factor IIF subunit 2 × 1 (P13984) Template DNA × 1 Transcription initiation factor IIA subunit 1 × 1 (P52655) Transcription initiation factor IIA subunit 2 × 1 (P52657) Histone H3.2 × 2 (P84233) Histone H4 × 2 (P62799) Histone H2A type 1 × 2 (P06897) Histone H2B 1.1 × 2 (P02281) ZINC ION × 9 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name TF2B_HUMAN
Isoform —
PDB entities 13
Chains and sequence ranges Author chain M; PDBConstruct 1–316; UniProt 1–316

TATA-box-binding protein

Homo sapiens

UniProt P20226

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 26 DNA 2 DNA-directed RNA polymerase subunit × 1 (A0A8D1DPV6) DNA-directed RNA polymerase subunit beta × 1 (I3LGP4) DNA-directed RNA polymerase II subunit RPB3 × 1 (I3LCH3) RNA polymerase II subunit D × 1 (A0A287ADR4) DNA-directed RNA polymerase II subunit E × 1 (I3LSI7) DNA-directed RNA polymerase II subunit F × 1 (F1SKN8) DNA-directed RNA polymerase II subunit RPB7 × 1 (I3LJZ9) DNA-directed RNA polymerases I, II, and III subunit RPABC3 × 1 (I3LCB2) DNA-directed RNA polymerase II subunit RPB9 × 1 (P60899) DNA-directed RNA polymerases I, II, and III subunit RPABC5 × 1 (A0A4X1VYD0) DNA-directed RNA polymerase II subunit RPB11-a × 1 (F1RKE4) RNA polymerase II subunit K × 1 (I3LN51) Transcription initiation factor IIB × 1 (Q00403) Non-template DNA × 1 General transcription factor IIF subunit 1 × 1 (P35269) General transcription factor IIF subunit 2 × 1 (P13984) Template DNA × 1 Transcription initiation factor IIA subunit 1 × 1 (P52655) Transcription initiation factor IIA subunit 2 × 1 (P52657) Histone H3.2 × 2 (P84233) Histone H4 × 2 (P62799) Histone H2A type 1 × 2 (P06897) Histone H2B 1.1 × 2 (P02281) ZINC ION × 9 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name TBP_HUMAN
Isoform —
PDB entities 15
Chains and sequence ranges Author chain O; PDBConstruct 1–339; UniProt 1–339

General transcription factor IIF subunit 1

Homo sapiens

UniProt P35269

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 26 DNA 2 DNA-directed RNA polymerase subunit × 1 (A0A8D1DPV6) DNA-directed RNA polymerase subunit beta × 1 (I3LGP4) DNA-directed RNA polymerase II subunit RPB3 × 1 (I3LCH3) RNA polymerase II subunit D × 1 (A0A287ADR4) DNA-directed RNA polymerase II subunit E × 1 (I3LSI7) DNA-directed RNA polymerase II subunit F × 1 (F1SKN8) DNA-directed RNA polymerase II subunit RPB7 × 1 (I3LJZ9) DNA-directed RNA polymerases I, II, and III subunit RPABC3 × 1 (I3LCB2) DNA-directed RNA polymerase II subunit RPB9 × 1 (P60899) DNA-directed RNA polymerases I, II, and III subunit RPABC5 × 1 (A0A4X1VYD0) DNA-directed RNA polymerase II subunit RPB11-a × 1 (F1RKE4) RNA polymerase II subunit K × 1 (I3LN51) Transcription initiation factor IIB × 1 (Q00403) Non-template DNA × 1 TATA-box-binding protein × 1 (P20226) General transcription factor IIF subunit 2 × 1 (P13984) Template DNA × 1 Transcription initiation factor IIA subunit 1 × 1 (P52655) Transcription initiation factor IIA subunit 2 × 1 (P52657) Histone H3.2 × 2 (P84233) Histone H4 × 2 (P62799) Histone H2A type 1 × 2 (P06897) Histone H2B 1.1 × 2 (P02281) ZINC ION × 9 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name T2FA_HUMAN
Isoform —
PDB entities 16
Chains and sequence ranges Author chain Q; PDBConstruct 1–517; UniProt 1–517

General transcription factor IIF subunit 2

Homo sapiens

UniProt P13984

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 26 DNA 2 DNA-directed RNA polymerase subunit × 1 (A0A8D1DPV6) DNA-directed RNA polymerase subunit beta × 1 (I3LGP4) DNA-directed RNA polymerase II subunit RPB3 × 1 (I3LCH3) RNA polymerase II subunit D × 1 (A0A287ADR4) DNA-directed RNA polymerase II subunit E × 1 (I3LSI7) DNA-directed RNA polymerase II subunit F × 1 (F1SKN8) DNA-directed RNA polymerase II subunit RPB7 × 1 (I3LJZ9) DNA-directed RNA polymerases I, II, and III subunit RPABC3 × 1 (I3LCB2) DNA-directed RNA polymerase II subunit RPB9 × 1 (P60899) DNA-directed RNA polymerases I, II, and III subunit RPABC5 × 1 (A0A4X1VYD0) DNA-directed RNA polymerase II subunit RPB11-a × 1 (F1RKE4) RNA polymerase II subunit K × 1 (I3LN51) Transcription initiation factor IIB × 1 (Q00403) Non-template DNA × 1 TATA-box-binding protein × 1 (P20226) General transcription factor IIF subunit 1 × 1 (P35269) Template DNA × 1 Transcription initiation factor IIA subunit 1 × 1 (P52655) Transcription initiation factor IIA subunit 2 × 1 (P52657) Histone H3.2 × 2 (P84233) Histone H4 × 2 (P62799) Histone H2A type 1 × 2 (P06897) Histone H2B 1.1 × 2 (P02281) ZINC ION × 9 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name T2FB_HUMAN
Isoform —
PDB entities 17
Chains and sequence ranges Author chain R; PDBConstruct 1–249; UniProt 1–249

Transcription initiation factor IIA subunit 1

Homo sapiens

UniProt P52655

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 26 DNA 2 DNA-directed RNA polymerase subunit × 1 (A0A8D1DPV6) DNA-directed RNA polymerase subunit beta × 1 (I3LGP4) DNA-directed RNA polymerase II subunit RPB3 × 1 (I3LCH3) RNA polymerase II subunit D × 1 (A0A287ADR4) DNA-directed RNA polymerase II subunit E × 1 (I3LSI7) DNA-directed RNA polymerase II subunit F × 1 (F1SKN8) DNA-directed RNA polymerase II subunit RPB7 × 1 (I3LJZ9) DNA-directed RNA polymerases I, II, and III subunit RPABC3 × 1 (I3LCB2) DNA-directed RNA polymerase II subunit RPB9 × 1 (P60899) DNA-directed RNA polymerases I, II, and III subunit RPABC5 × 1 (A0A4X1VYD0) DNA-directed RNA polymerase II subunit RPB11-a × 1 (F1RKE4) RNA polymerase II subunit K × 1 (I3LN51) Transcription initiation factor IIB × 1 (Q00403) Non-template DNA × 1 TATA-box-binding protein × 1 (P20226) General transcription factor IIF subunit 1 × 1 (P35269) General transcription factor IIF subunit 2 × 1 (P13984) Template DNA × 1 Transcription initiation factor IIA subunit 2 × 1 (P52657) Histone H3.2 × 2 (P84233) Histone H4 × 2 (P62799) Histone H2A type 1 × 2 (P06897) Histone H2B 1.1 × 2 (P02281) ZINC ION × 9 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name TF2AA_HUMAN
Isoform —
PDB entities 19
Chains and sequence ranges Author chain U; PDBConstruct 1–376; UniProt 1–376

Transcription initiation factor IIA subunit 2

Homo sapiens

UniProt P52657

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 26 DNA 2 DNA-directed RNA polymerase subunit × 1 (A0A8D1DPV6) DNA-directed RNA polymerase subunit beta × 1 (I3LGP4) DNA-directed RNA polymerase II subunit RPB3 × 1 (I3LCH3) RNA polymerase II subunit D × 1 (A0A287ADR4) DNA-directed RNA polymerase II subunit E × 1 (I3LSI7) DNA-directed RNA polymerase II subunit F × 1 (F1SKN8) DNA-directed RNA polymerase II subunit RPB7 × 1 (I3LJZ9) DNA-directed RNA polymerases I, II, and III subunit RPABC3 × 1 (I3LCB2) DNA-directed RNA polymerase II subunit RPB9 × 1 (P60899) DNA-directed RNA polymerases I, II, and III subunit RPABC5 × 1 (A0A4X1VYD0) DNA-directed RNA polymerase II subunit RPB11-a × 1 (F1RKE4) RNA polymerase II subunit K × 1 (I3LN51) Transcription initiation factor IIB × 1 (Q00403) Non-template DNA × 1 TATA-box-binding protein × 1 (P20226) General transcription factor IIF subunit 1 × 1 (P35269) General transcription factor IIF subunit 2 × 1 (P13984) Template DNA × 1 Transcription initiation factor IIA subunit 1 × 1 (P52655) Histone H3.2 × 2 (P84233) Histone H4 × 2 (P62799) Histone H2A type 1 × 2 (P06897) Histone H2B 1.1 × 2 (P02281) ZINC ION × 9 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name T2AG_HUMAN
Isoform —
PDB entities 20
Chains and sequence ranges Author chain V; PDBConstruct 1–109; UniProt 1–109

Histone H3.2

Xenopus laevis

UniProt P84233

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 26 DNA 2 DNA-directed RNA polymerase subunit × 1 (A0A8D1DPV6) DNA-directed RNA polymerase subunit beta × 1 (I3LGP4) DNA-directed RNA polymerase II subunit RPB3 × 1 (I3LCH3) RNA polymerase II subunit D × 1 (A0A287ADR4) DNA-directed RNA polymerase II subunit E × 1 (I3LSI7) DNA-directed RNA polymerase II subunit F × 1 (F1SKN8) DNA-directed RNA polymerase II subunit RPB7 × 1 (I3LJZ9) DNA-directed RNA polymerases I, II, and III subunit RPABC3 × 1 (I3LCB2) DNA-directed RNA polymerase II subunit RPB9 × 1 (P60899) DNA-directed RNA polymerases I, II, and III subunit RPABC5 × 1 (A0A4X1VYD0) DNA-directed RNA polymerase II subunit RPB11-a × 1 (F1RKE4) RNA polymerase II subunit K × 1 (I3LN51) Transcription initiation factor IIB × 1 (Q00403) Non-template DNA × 1 TATA-box-binding protein × 1 (P20226) General transcription factor IIF subunit 1 × 1 (P35269) General transcription factor IIF subunit 2 × 1 (P13984) Template DNA × 1 Transcription initiation factor IIA subunit 1 × 1 (P52655) Transcription initiation factor IIA subunit 2 × 1 (P52657) Histone H4 × 2 (P62799) Histone H2A type 1 × 2 (P06897) Histone H2B 1.1 × 2 (P02281) ZINC ION × 9 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name H32_XENLA
Isoform —
PDB entities 21
Chains and sequence ranges Author chain a; PDBConstruct 1–136; UniProt 1–136 Author chain e; PDBConstruct 1–136; UniProt 1–136

Histone H4

Xenopus laevis

UniProt P62799

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 26 DNA 2 DNA-directed RNA polymerase subunit × 1 (A0A8D1DPV6) DNA-directed RNA polymerase subunit beta × 1 (I3LGP4) DNA-directed RNA polymerase II subunit RPB3 × 1 (I3LCH3) RNA polymerase II subunit D × 1 (A0A287ADR4) DNA-directed RNA polymerase II subunit E × 1 (I3LSI7) DNA-directed RNA polymerase II subunit F × 1 (F1SKN8) DNA-directed RNA polymerase II subunit RPB7 × 1 (I3LJZ9) DNA-directed RNA polymerases I, II, and III subunit RPABC3 × 1 (I3LCB2) DNA-directed RNA polymerase II subunit RPB9 × 1 (P60899) DNA-directed RNA polymerases I, II, and III subunit RPABC5 × 1 (A0A4X1VYD0) DNA-directed RNA polymerase II subunit RPB11-a × 1 (F1RKE4) RNA polymerase II subunit K × 1 (I3LN51) Transcription initiation factor IIB × 1 (Q00403) Non-template DNA × 1 TATA-box-binding protein × 1 (P20226) General transcription factor IIF subunit 1 × 1 (P35269) General transcription factor IIF subunit 2 × 1 (P13984) Template DNA × 1 Transcription initiation factor IIA subunit 1 × 1 (P52655) Transcription initiation factor IIA subunit 2 × 1 (P52657) Histone H3.2 × 2 (P84233) Histone H2A type 1 × 2 (P06897) Histone H2B 1.1 × 2 (P02281) ZINC ION × 9 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name H4_XENLA
Isoform —
PDB entities 22
Chains and sequence ranges Author chain b; PDBConstruct 1–103; UniProt 1–103 Author chain f; PDBConstruct 1–103; UniProt 1–103

Histone H2A type 1

Xenopus laevis

UniProt P06897

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 26 DNA 2 DNA-directed RNA polymerase subunit × 1 (A0A8D1DPV6) DNA-directed RNA polymerase subunit beta × 1 (I3LGP4) DNA-directed RNA polymerase II subunit RPB3 × 1 (I3LCH3) RNA polymerase II subunit D × 1 (A0A287ADR4) DNA-directed RNA polymerase II subunit E × 1 (I3LSI7) DNA-directed RNA polymerase II subunit F × 1 (F1SKN8) DNA-directed RNA polymerase II subunit RPB7 × 1 (I3LJZ9) DNA-directed RNA polymerases I, II, and III subunit RPABC3 × 1 (I3LCB2) DNA-directed RNA polymerase II subunit RPB9 × 1 (P60899) DNA-directed RNA polymerases I, II, and III subunit RPABC5 × 1 (A0A4X1VYD0) DNA-directed RNA polymerase II subunit RPB11-a × 1 (F1RKE4) RNA polymerase II subunit K × 1 (I3LN51) Transcription initiation factor IIB × 1 (Q00403) Non-template DNA × 1 TATA-box-binding protein × 1 (P20226) General transcription factor IIF subunit 1 × 1 (P35269) General transcription factor IIF subunit 2 × 1 (P13984) Template DNA × 1 Transcription initiation factor IIA subunit 1 × 1 (P52655) Transcription initiation factor IIA subunit 2 × 1 (P52657) Histone H3.2 × 2 (P84233) Histone H4 × 2 (P62799) Histone H2B 1.1 × 2 (P02281) ZINC ION × 9 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name H2A1_XENLA
Isoform —
PDB entities 23
Chains and sequence ranges Author chain c; PDBConstruct 1–130; UniProt 1–130 Author chain g; PDBConstruct 1–130; UniProt 1–130

Histone H2B 1.1

Xenopus laevis

UniProt P02281

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 26 DNA 2 DNA-directed RNA polymerase subunit × 1 (A0A8D1DPV6) DNA-directed RNA polymerase subunit beta × 1 (I3LGP4) DNA-directed RNA polymerase II subunit RPB3 × 1 (I3LCH3) RNA polymerase II subunit D × 1 (A0A287ADR4) DNA-directed RNA polymerase II subunit E × 1 (I3LSI7) DNA-directed RNA polymerase II subunit F × 1 (F1SKN8) DNA-directed RNA polymerase II subunit RPB7 × 1 (I3LJZ9) DNA-directed RNA polymerases I, II, and III subunit RPABC3 × 1 (I3LCB2) DNA-directed RNA polymerase II subunit RPB9 × 1 (P60899) DNA-directed RNA polymerases I, II, and III subunit RPABC5 × 1 (A0A4X1VYD0) DNA-directed RNA polymerase II subunit RPB11-a × 1 (F1RKE4) RNA polymerase II subunit K × 1 (I3LN51) Transcription initiation factor IIB × 1 (Q00403) Non-template DNA × 1 TATA-box-binding protein × 1 (P20226) General transcription factor IIF subunit 1 × 1 (P35269) General transcription factor IIF subunit 2 × 1 (P13984) Template DNA × 1 Transcription initiation factor IIA subunit 1 × 1 (P52655) Transcription initiation factor IIA subunit 2 × 1 (P52657) Histone H3.2 × 2 (P84233) Histone H4 × 2 (P62799) Histone H2A type 1 × 2 (P06897) ZINC ION × 9 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name H2B11_XENLA
Isoform —
PDB entities 24
Chains and sequence ranges Author chain d; PDBConstruct 1–126; UniProt 1–126 Author chain h; PDBConstruct 1–126; UniProt 1–126

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id8bz1
Deposition date deposition_date2022-12-14
Structure title titleRNA polymerase II core pre-initiation complex with the proximal +1 nucleosome (cPIC-Nuc10W)
Keywords keywordsMammalian PIC, +1 nucleosome, transcription initiation, TRANSCRIPTION; TRANSCRIPTION
Experimental Method methodELECTRON MICROSCOPY
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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

8bz1__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

8bz1__assembly_1__model_1 | I(q)

10-2 10-1 106 107 108 109 q (1/Angstrom) I(q)
100 plotted points; both axes use logarithmic scales.

8bz1__assembly_1__model_1 | P(r) · Pending

The new assembly/model P(r) has not been calculated yet This placeholder does not display legacy data r (Angstrom) P(r)
P(r) will be calculated and displayed separately for the same assembly/model.
Rg(Guinier)76.04 Å
Rg (electron density)74.33 Å
Total Rg74.53 Å
Atom count103616
Residues6063
Excluded volume926280 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 8bz1__assembly_1__model_1 28-meric (28) Success 4.1.3-1-20251215 (887e7ef) View Download
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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (26)

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7. Citations (1)