7xya

The cryo-EM structure of an AlpA-loading complex

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

DNA-directed RNA polymerase subunit alpha

Pseudomonas aeruginosa

UniProt O52760

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 7 DNA 2 RNA 1 DNA-directed RNA polymerase subunit beta × 1 (Q51561) ;DNA-directed RNA polymerase subunit beta' ; × 1 (Q9HWC9) DNA-directed RNA polymerase subunit omega × 1 (Q9HTM1) RNA polymerase sigma factor RpoD × 1 (P26480) nontemplate strand DNA × 1 RNA × 1 template strand DNA × 1 AlpA × 1 (A0A2R3ITY7) MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name RPOA_PSEAE
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–333; UniProt 1–333 Author chain B; PDBConstruct 1–333; UniProt 1–333

DNA-directed RNA polymerase subunit beta

Pseudomonas aeruginosa

UniProt Q51561

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 7 DNA 2 RNA 1 DNA-directed RNA polymerase subunit alpha × 2 (O52760) ;DNA-directed RNA polymerase subunit beta' ; × 1 (Q9HWC9) DNA-directed RNA polymerase subunit omega × 1 (Q9HTM1) RNA polymerase sigma factor RpoD × 1 (P26480) nontemplate strand DNA × 1 RNA × 1 template strand DNA × 1 AlpA × 1 (A0A2R3ITY7) MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name RPOB_PSEAE
Isoform —
PDB entities 2
Chains and sequence ranges Author chain C; PDBConstruct 1–1357; UniProt 1–1357

;DNA-directed RNA polymerase subunit beta' ;

Pseudomonas aeruginosa

UniProt Q9HWC9

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 7 DNA 2 RNA 1 DNA-directed RNA polymerase subunit alpha × 2 (O52760) DNA-directed RNA polymerase subunit beta × 1 (Q51561) DNA-directed RNA polymerase subunit omega × 1 (Q9HTM1) RNA polymerase sigma factor RpoD × 1 (P26480) nontemplate strand DNA × 1 RNA × 1 template strand DNA × 1 AlpA × 1 (A0A2R3ITY7) MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name RPOC_PSEAE
Isoform —
PDB entities 3
Chains and sequence ranges Author chain D; PDBConstruct 1–1399; UniProt 1–1399

DNA-directed RNA polymerase subunit omega

Pseudomonas aeruginosa

UniProt Q9HTM1

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 7 DNA 2 RNA 1 DNA-directed RNA polymerase subunit alpha × 2 (O52760) DNA-directed RNA polymerase subunit beta × 1 (Q51561) ;DNA-directed RNA polymerase subunit beta' ; × 1 (Q9HWC9) RNA polymerase sigma factor RpoD × 1 (P26480) nontemplate strand DNA × 1 RNA × 1 template strand DNA × 1 AlpA × 1 (A0A2R3ITY7) MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name RPOZ_PSEAE
Isoform —
PDB entities 4
Chains and sequence ranges Author chain E; PDBConstruct 1–88; UniProt 1–88

RNA polymerase sigma factor RpoD

Pseudomonas aeruginosa

UniProt P26480

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 7 DNA 2 RNA 1 DNA-directed RNA polymerase subunit alpha × 2 (O52760) DNA-directed RNA polymerase subunit beta × 1 (Q51561) ;DNA-directed RNA polymerase subunit beta' ; × 1 (Q9HWC9) DNA-directed RNA polymerase subunit omega × 1 (Q9HTM1) nontemplate strand DNA × 1 RNA × 1 template strand DNA × 1 AlpA × 1 (A0A2R3ITY7) MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name RPOD_PSEAE
Isoform —
PDB entities 5
Chains and sequence ranges Author chain F; PDBConstruct 1–617; UniProt 1–617

AlpA

Pseudomonas aeruginosa

UniProt A0A2R3ITY7

State in the Current Structure

Assembly Physical composition Protein state Molecular copy count Associated components Data consistency
1 Other combination Heteromer Protein 7 DNA 2 RNA 1 DNA-directed RNA polymerase subunit alpha × 2 (O52760) DNA-directed RNA polymerase subunit beta × 1 (Q51561) ;DNA-directed RNA polymerase subunit beta' ; × 1 (Q9HWC9) DNA-directed RNA polymerase subunit omega × 1 (Q9HTM1) RNA polymerase sigma factor RpoD × 1 (P26480) nontemplate strand DNA × 1 RNA × 1 template strand DNA × 1 MAGNESIUM ION × 1 Consistent with all polymers

Other States of the Same Protein in the Database

View Construct and Data Evidence
UniProt name A0A2R3ITY7_PSEAI
Isoform —
PDB entities 9
Chains and sequence ranges Author chain G; PDBConstruct 1–176; UniProt 1–176

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_id7xya
Deposition date deposition_date2022-06-01
Structure title titleThe cryo-EM structure of an AlpA-loading complex
Keywords keywordsAntitermination, RNA polymerase, Transcription regulation, Antiterminator, Transcription termination, 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.

7xya__assembly_1__model_1

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

Download this curve (.dat)

7xya__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.

7xya__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)50.84 Å
Rg (electron density)50.34 Å
Total Rg50.53 Å
Atom count26550
Residues3605
Excluded volume458400 ų
Maximum q0.500 Å⁻¹
Assembly Model Structure unit Oligomeric description Status CRYSOL Actions
1 1 7xya__assembly_1__model_1 decameric (10) 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) 4 domains

CATH v4.4 (4 domains)

Domain ID domain_id7xyaB01
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_id7xyaD01
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
Domain ID domain_id7xyaD02
Class class2 — Mainly Beta
Architecture architecture40 — Beta Barrel
Topology topology50 — OB fold (Dihydrolipoamide Acetyltransferase, E2P)
Homologous superfamily homologous superfamily100 — RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain
Domain ID domain_id7xyaE01
Class class3 — Alpha Beta
Architecture architecture90 — Alpha-Beta Complex
Topology topology940 — Eukaryotic RPB6 RNA polymerase subunit
Homologous superfamily homologous superfamily10 — RNA polymerase subunit, RPB6/omega
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7. Citations (1)