6c04

Mtb RNAP Holo/RbpA/double fork DNA -closed clamp

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

DNA-directed RNA polymerase subunit alpha

Mycobacterium tuberculosis

UniProt A0A045J8T1

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 7 DNA 4 DNA-directed RNA polymerase subunit beta × 1 (V9Z879) ;DNA-directed RNA polymerase subunit beta' ; × 1 (A0A045J9E2) DNA-directed RNA polymerase subunit omega × 1 (A0A0T9N9K3) RNA polymerase sigma factor SigA × 1 (A0A045HD00) RNA polymerase-binding protein RbpA × 1 (A0A045IP01) DNA (31-MER) × 2 DNA (26-MER) × 2 ZINC ION × 2 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name A0A045J8T1_MYCTX
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–347; UniProt 1–347 Author chain B; PDBConstruct 1–347; UniProt 1–347

DNA-directed RNA polymerase subunit beta

Mycobacterium tuberculosis

UniProt V9Z879

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 7 DNA 4 DNA-directed RNA polymerase subunit alpha × 2 (A0A045J8T1) ;DNA-directed RNA polymerase subunit beta' ; × 1 (A0A045J9E2) DNA-directed RNA polymerase subunit omega × 1 (A0A0T9N9K3) RNA polymerase sigma factor SigA × 1 (A0A045HD00) RNA polymerase-binding protein RbpA × 1 (A0A045IP01) DNA (31-MER) × 2 DNA (26-MER) × 2 ZINC ION × 2 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name V9Z879_MYCTX
Isoform —
PDB entities 2
Chains and sequence ranges Author chain C; PDBConstruct 1–1172; UniProt 1–1172

;DNA-directed RNA polymerase subunit beta' ;

Mycobacterium tuberculosis

UniProt A0A045J9E2

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 7 DNA 4 DNA-directed RNA polymerase subunit alpha × 2 (A0A045J8T1) DNA-directed RNA polymerase subunit beta × 1 (V9Z879) DNA-directed RNA polymerase subunit omega × 1 (A0A0T9N9K3) RNA polymerase sigma factor SigA × 1 (A0A045HD00) RNA polymerase-binding protein RbpA × 1 (A0A045IP01) DNA (31-MER) × 2 DNA (26-MER) × 2 ZINC ION × 2 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name A0A045J9E2_MYCTX
Isoform —
PDB entities 3
Chains and sequence ranges Author chain D; PDBConstruct 3–1318; UniProt 1–1316

DNA-directed RNA polymerase subunit omega

Mycobacterium tuberculosis

UniProt A0A0T9N9K3

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 7 DNA 4 DNA-directed RNA polymerase subunit alpha × 2 (A0A045J8T1) DNA-directed RNA polymerase subunit beta × 1 (V9Z879) ;DNA-directed RNA polymerase subunit beta' ; × 1 (A0A045J9E2) RNA polymerase sigma factor SigA × 1 (A0A045HD00) RNA polymerase-binding protein RbpA × 1 (A0A045IP01) DNA (31-MER) × 2 DNA (26-MER) × 2 ZINC ION × 2 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name A0A0T9N9K3_MYCTX
Isoform —
PDB entities 4
Chains and sequence ranges Author chain E; PDBConstruct 2–110; UniProt 41–149

RNA polymerase sigma factor SigA

Mycobacterium tuberculosis

UniProt A0A045HD00

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 7 DNA 4 DNA-directed RNA polymerase subunit alpha × 2 (A0A045J8T1) DNA-directed RNA polymerase subunit beta × 1 (V9Z879) ;DNA-directed RNA polymerase subunit beta' ; × 1 (A0A045J9E2) DNA-directed RNA polymerase subunit omega × 1 (A0A0T9N9K3) RNA polymerase-binding protein RbpA × 1 (A0A045IP01) DNA (31-MER) × 2 DNA (26-MER) × 2 ZINC ION × 2 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name A0A045HD00_MYCTX
Isoform —
PDB entities 5
Chains and sequence ranges Author chain F; PDBConstruct 4–531; UniProt 1–528

RNA polymerase-binding protein RbpA

Mycobacterium tuberculosis

UniProt A0A045IP01

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Protein–DNA Heteromer Protein 7 DNA 4 DNA-directed RNA polymerase subunit alpha × 2 (A0A045J8T1) DNA-directed RNA polymerase subunit beta × 1 (V9Z879) ;DNA-directed RNA polymerase subunit beta' ; × 1 (A0A045J9E2) DNA-directed RNA polymerase subunit omega × 1 (A0A0T9N9K3) RNA polymerase sigma factor SigA × 1 (A0A045HD00) DNA (31-MER) × 2 DNA (26-MER) × 2 ZINC ION × 2 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name A0A045IP01_MYCTX
Isoform —
PDB entities 6
Chains and sequence ranges Author chain J; PDBConstruct 1–111; UniProt 1–111

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_id6c04
Deposition date deposition_date2017-12-27
Structure title titleMtb RNAP Holo/RbpA/double fork DNA -closed clamp
Keywords keywordsinitiation, transcription bubble, closed clamp, TRANSCRIPTION, transcription-dna complex; transcription/dna
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.

6c04__assembly_1__model_1

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

Download this curve (.dat)

6c04__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.

6c04__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)50.86 Å
Rg (electron density)49.96 Å
Total Rg50.22 Å
Atom count27982
Residues3448
Excluded volume490990 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 6c04__assembly_1__model_1 undecameric (11) 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 (10)

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6. Fold Classification (SCOP + CATH) 6 domains

CATH v4.4 (6 domains)

Domain ID domain_id6c04A01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1360 — Gyrase A; domain 2
Homologous superfamily homologous superfamily10 — RNA polymerase, RBP11-like subunit
Domain ID domain_id6c04A02
Class class2 — Mainly Beta
Architecture architecture170 — Beta Complex
Topology topology120 — RNA Polymerase Alpha Subunit; Chain A, domain 2
Homologous superfamily homologous superfamily12 — DNA-directed RNA polymerase, insert domain
Domain ID domain_id6c04B01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1360 — Gyrase A; domain 2
Homologous superfamily homologous superfamily10 — RNA polymerase, RBP11-like subunit
Domain ID domain_id6c04B02
Class class2 — Mainly Beta
Architecture architecture170 — Beta Complex
Topology topology120 — RNA Polymerase Alpha Subunit; Chain A, domain 2
Homologous superfamily homologous superfamily12 — DNA-directed RNA polymerase, insert domain
Domain ID domain_id6c04D01
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology274 — Enzyme I; Chain A, domain 2
Homologous superfamily homologous superfamily100 — RNA polymerase Rpb1, domain 3
Domain ID domain_id6c04D02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology132 — Topoisomerase I; Chain A, domain 4
Homologous superfamily homologous superfamily30 — RNA polymerase Rpb1 funnel domain
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7. Citations (2)