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6jcy

Mycobacterium tuberculosis RNA polymerase transcription initiation open complex with a chimeric ECF sigma factor sigH/E

Method: X-RAY DIFFRACTION
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1. Protein Identity and Related Structures Protein Identity & Related Structures

DNA-directed RNA polymerase subunit alpha

Mycobacterium tuberculosis H37Rv

UniProt P9WGZ1

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Insufficient information Heteromer Protein 6 DNA 2 RNA 1 DNA-directed RNA polymerase subunit beta × 1 （P9WGY9） ;DNA-directed RNA polymerase subunit beta' ; × 1 （P9WGY7） DNA-directed RNA polymerase subunit omega × 1 （P9WGY5） ECF RNA polymerase sigma factor SigH,ECF RNA polymerase sigma factor SigE,ECF RNA polymerase sigma factor SigH × 1 （P9WGG7,P9WGH9） ;DNA (5'-D(*TP*TP*GP*TP*GP*GP*GP*AP*GP*CP*TP*GP*TP*CP*AP*CP*GP*GP*AP*TP*GP*CP*A)-3') ; × 1 ;DNA (5'-D(*TP*GP*CP*AP*TP*CP*CP*GP*TP*GP*AP*GP*TP*CP*GP*AP*GP*GP*GP*T)-3') ; × 1 ;RNA (5'-R(*CP*CP*UP*CP*GP*A)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 water × 9 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
5uh5 5uh6 5uh8 5uh9 5uha 5uhb 5uhc 5uhd 5uhe 5uhf 5uhg 5zx2

51 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RPOA_MYCTU
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 22–368； UniProt 1–347 Author chain B； PDBConstruct 22–368； UniProt 1–347

DNA-directed RNA polymerase subunit beta

Mycobacterium tuberculosis H37Rv

UniProt P9WGY9

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Insufficient information Heteromer Protein 6 DNA 2 RNA 1 DNA-directed RNA polymerase subunit alpha × 2 （P9WGZ1） ;DNA-directed RNA polymerase subunit beta' ; × 1 （P9WGY7） DNA-directed RNA polymerase subunit omega × 1 （P9WGY5） ECF RNA polymerase sigma factor SigH,ECF RNA polymerase sigma factor SigE,ECF RNA polymerase sigma factor SigH × 1 （P9WGG7,P9WGH9） ;DNA (5'-D(*TP*TP*GP*TP*GP*GP*GP*AP*GP*CP*TP*GP*TP*CP*AP*CP*GP*GP*AP*TP*GP*CP*A)-3') ; × 1 ;DNA (5'-D(*TP*GP*CP*AP*TP*CP*CP*GP*TP*GP*AP*GP*TP*CP*GP*AP*GP*GP*GP*T)-3') ; × 1 ;RNA (5'-R(*CP*CP*UP*CP*GP*A)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 water × 9 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
5uh5 5uh6 5uh8 5uh9 5uha 5uhb 5uhc 5uhd 5uhe 5uhf 5uhg 5zx2

55 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RPOB_MYCTU
Isoform —
PDB entities 2
Chains and sequence ranges Author chain C； PDBConstruct 3–1174； UniProt 7–1178

;DNA-directed RNA polymerase subunit beta' ;

Mycobacterium tuberculosis H37Rv

UniProt P9WGY7

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Insufficient information Heteromer Protein 6 DNA 2 RNA 1 DNA-directed RNA polymerase subunit alpha × 2 （P9WGZ1） DNA-directed RNA polymerase subunit beta × 1 （P9WGY9） DNA-directed RNA polymerase subunit omega × 1 （P9WGY5） ECF RNA polymerase sigma factor SigH,ECF RNA polymerase sigma factor SigE,ECF RNA polymerase sigma factor SigH × 1 （P9WGG7,P9WGH9） ;DNA (5'-D(*TP*TP*GP*TP*GP*GP*GP*AP*GP*CP*TP*GP*TP*CP*AP*CP*GP*GP*AP*TP*GP*CP*A)-3') ; × 1 ;DNA (5'-D(*TP*GP*CP*AP*TP*CP*CP*GP*TP*GP*AP*GP*TP*CP*GP*AP*GP*GP*GP*T)-3') ; × 1 ;RNA (5'-R(*CP*CP*UP*CP*GP*A)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 water × 9 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer
5uh7

1 assemblies

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
5uh5 5uh6 5uh9 5uha 5uhb 5uhc 5uhd 5uhe 5uhf 5uhg 5zx2 5zx3

51 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RPOC_MYCTU
Isoform —
PDB entities 3
Chains and sequence ranges Author chain D； PDBConstruct 3–1317； UniProt 2–1316

DNA-directed RNA polymerase subunit omega

Mycobacterium tuberculosis H37Rv

UniProt P9WGY5

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Insufficient information Heteromer Protein 6 DNA 2 RNA 1 DNA-directed RNA polymerase subunit alpha × 2 （P9WGZ1） DNA-directed RNA polymerase subunit beta × 1 （P9WGY9） ;DNA-directed RNA polymerase subunit beta' ; × 1 （P9WGY7） ECF RNA polymerase sigma factor SigH,ECF RNA polymerase sigma factor SigE,ECF RNA polymerase sigma factor SigH × 1 （P9WGG7,P9WGH9） ;DNA (5'-D(*TP*TP*GP*TP*GP*GP*GP*AP*GP*CP*TP*GP*TP*CP*AP*CP*GP*GP*AP*TP*GP*CP*A)-3') ; × 1 ;DNA (5'-D(*TP*GP*CP*AP*TP*CP*CP*GP*TP*GP*AP*GP*TP*CP*GP*AP*GP*GP*GP*T)-3') ; × 1 ;RNA (5'-R(*CP*CP*UP*CP*GP*A)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 water × 9 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
5uh5 5uh6 5uh8 5uh9 5uha 5uhb 5uhc 5uhd 5uhe 5uhf 5uhg 5zx2

47 assemblies; showing the first 12

View Construct and Data Evidence
UniProt name RPOZ_MYCTU
Isoform —
PDB entities 4
Chains and sequence ranges Author chain E； PDBConstruct 1–110； UniProt 1–110

ECF RNA polymerase sigma factor SigH,ECF RNA polymerase sigma factor SigE,ECF RNA polymerase sigma factor SigH

Mycobacterium tuberculosis H37Rv

UniProt P9WGG7

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Insufficient information Heteromer Protein 6 DNA 2 RNA 1 DNA-directed RNA polymerase subunit alpha × 2 （P9WGZ1） DNA-directed RNA polymerase subunit beta × 1 （P9WGY9） ;DNA-directed RNA polymerase subunit beta' ; × 1 （P9WGY7） DNA-directed RNA polymerase subunit omega × 1 （P9WGY5） ;DNA (5'-D(*TP*TP*GP*TP*GP*GP*GP*AP*GP*CP*TP*GP*TP*CP*AP*CP*GP*GP*AP*TP*GP*CP*A)-3') ; × 1 ;DNA (5'-D(*TP*GP*CP*AP*TP*CP*CP*GP*TP*GP*AP*GP*TP*CP*GP*AP*GP*GP*GP*T)-3') ; × 1 ;RNA (5'-R(*CP*CP*UP*CP*GP*A)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 water × 9 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
6jcy 9m98 9m9d 9m9e

4 assemblies

View Construct and Data Evidence
UniProt name SIGE_MYCTU
Isoform —
PDB entities 5
Chains and sequence ranges Author chain F； PDBConstruct 98–136； UniProt 150–188

ECF RNA polymerase sigma factor SigH,ECF RNA polymerase sigma factor SigE,ECF RNA polymerase sigma factor SigH

Mycobacterium tuberculosis H37Rv

UniProt P9WGH9

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Insufficient information Heteromer Protein 6 DNA 2 RNA 1 DNA-directed RNA polymerase subunit alpha × 2 （P9WGZ1） DNA-directed RNA polymerase subunit beta × 1 （P9WGY9） ;DNA-directed RNA polymerase subunit beta' ; × 1 （P9WGY7） DNA-directed RNA polymerase subunit omega × 1 （P9WGY5） ;DNA (5'-D(*TP*TP*GP*TP*GP*GP*GP*AP*GP*CP*TP*GP*TP*CP*AP*CP*GP*GP*AP*TP*GP*CP*A)-3') ; × 1 ;DNA (5'-D(*TP*GP*CP*AP*TP*CP*CP*GP*TP*GP*AP*GP*TP*CP*GP*AP*GP*GP*GP*T)-3') ; × 1 ;RNA (5'-R(*CP*CP*UP*CP*GP*A)-3') ; × 1 ZINC ION × 2 MAGNESIUM ION × 1 water × 9 Consistent with all polymers

Other States of the Same Protein in the Database

Monomer

None

Homodimer

None

Homotetramer

None

Other homooligomers

None

Heteromeric or nucleic-acid complex
5zx2 5zx3 6jcx 6jcy 6kon 6koo 6kop 6koq

8 assemblies

View Construct and Data Evidence
UniProt name SIGH_MYCTU
Isoform —
PDB entities 5
Chains and sequence ranges Author chain F； PDBConstruct 3–97； UniProt 1–95 Author chain F； PDBConstruct 137–209； UniProt 144–216

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_id6jcy
Deposition date deposition_date2019-01-30
Structure title titleMycobacterium tuberculosis RNA polymerase transcription initiation open complex with a chimeric ECF sigma factor sigH/E
Keywords keywordsMycobacterium tuberculosis, RNA polymerase, open complex, sigma H/E, TRANSCRIPTION; TRANSCRIPTION
Experimental Method methodX-RAY DIFFRACTION
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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.

6jcy__assembly_1__model_1

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

Download this curve (.dat)

6jcy__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.

6jcy__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）46.51 Å
Rg (electron density)46.24 Å
Total Rg46.44 Å
Atom count24599
Residues3140
Excluded volume432910 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 6jcy__assembly_1__model_1 nonameric （9） 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 (11)

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6. Fold Classification (SCOP + CATH) 7 domains

CATH v4.4 (7 domains)

Domain ID domain_id6jcyA01
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_id6jcyA02
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_id6jcyB01
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_id6jcyB02
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_id6jcyC01
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology1110 — Dna-directed Rna Polymerase Ii 140kd Polypeptide; Chain: B; domain 3
Homologous superfamily homologous superfamily10 — RNA polymerase Rpb2, domain 2
Domain ID domain_id6jcyD01
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_id6jcyD02
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 (1)