24xy

P2Y13R-Gq complex bound to ADP

Method: ELECTRON MICROSCOPY Dmax: 122.5 Å Quality: REASONABLE

1. Protein Identity and Related Structures Protein Identity & Related Structures

Soluble cytochrome b562,P2Y purinoceptor 13,LgBiT tag,GFP

human respiratory syncytial virus

UniProt A0A5P9VSM6

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Insufficient information Heteromer Protein × 6 PDB declaration: hexameric(6) Consistent with protein copy count Chain R; UniProt 2–239 Mutation:mutation Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2,miniGsqi × 1 (P59768) Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 × 1 (P54311) Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 × 1 (P63212) nanobody Nb35 × 1 scFv16 × 1 ADENOSINE-5'-DIPHOSPHATE × 1 ELECTRON MICROSCOPY mmCIF provides none of the parsed experimental conditions Resolution 3.00 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

11 other PDB entries and 11 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name A0A5P9VSM6_HRSV
Isoform
PDB entities 1
Chains and sequence ranges Author chain R; PDBConstruct 665–902; UniProt 2–239

Soluble cytochrome b562,P2Y purinoceptor 13,LgBiT tag,GFP

human respiratory syncytial virus

UniProt P0ABE7

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Insufficient information Heteromer Protein × 6 PDB declaration: hexameric(6) Consistent with protein copy count Chain R; UniProt 23–128 Mutation:mutation Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2,miniGsqi × 1 (P59768) Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 × 1 (P54311) Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 × 1 (P63212) nanobody Nb35 × 1 scFv16 × 1 ADENOSINE-5'-DIPHOSPHATE × 1 ELECTRON MICROSCOPY mmCIF provides none of the parsed experimental conditions Resolution 3.00 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

714 other PDB entries and 822 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name C562_ECOLX
Isoform
PDB entities 1
Chains and sequence ranges Author chain R; PDBConstruct 25–130; UniProt 23–128

Soluble cytochrome b562,P2Y purinoceptor 13,LgBiT tag,GFP

human respiratory syncytial virus

UniProt Q9BPV8

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Insufficient information Heteromer Protein × 6 PDB declaration: hexameric(6) Consistent with protein copy count Chain R; UniProt 22–354 Mutation:mutation Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2,miniGsqi × 1 (P59768) Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 × 1 (P54311) Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 × 1 (P63212) nanobody Nb35 × 1 scFv16 × 1 ADENOSINE-5'-DIPHOSPHATE × 1 ELECTRON MICROSCOPY mmCIF provides none of the parsed experimental conditions Resolution 3.00 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

No other PDB entry for the same UniProt protein was found.

View Construct and Data Evidence
UniProt name P2Y13_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain R; PDBConstruct 131–463; UniProt 22–354

Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2,miniGsqi

Homo sapiens

UniProt P59768

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Insufficient information Heteromer Protein × 6 PDB declaration: hexameric(6) Consistent with protein copy count Chain A; UniProt 1–67 Not recorded Soluble cytochrome b562,P2Y purinoceptor 13,LgBiT tag,GFP × 1 (P0ABE7,Q9BPV8,A0A5P9VSM6) Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 × 1 (P54311) Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 × 1 (P63212) nanobody Nb35 × 1 scFv16 × 1 ADENOSINE-5'-DIPHOSPHATE × 1 ELECTRON MICROSCOPY mmCIF provides none of the parsed experimental conditions Resolution 3.00 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

1233 other PDB entries and 1236 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name GBG2_HUMAN
Isoform
PDB entities 2
Chains and sequence ranges Author chain A; PDBConstruct 1–67; UniProt 1–67

Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1

Rattus norvegicus

UniProt P54311

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Insufficient information Heteromer Protein × 6 PDB declaration: hexameric(6) Consistent with protein copy count Chain B; UniProt 2–340 Not recorded Soluble cytochrome b562,P2Y purinoceptor 13,LgBiT tag,GFP × 1 (P0ABE7,Q9BPV8,A0A5P9VSM6) Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2,miniGsqi × 1 (P59768) Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 × 1 (P63212) nanobody Nb35 × 1 scFv16 × 1 ADENOSINE-5'-DIPHOSPHATE × 1 ELECTRON MICROSCOPY mmCIF provides none of the parsed experimental conditions Resolution 3.00 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

161 other PDB entries and 162 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name GBB1_RAT
Isoform
PDB entities 3
Chains and sequence ranges Author chain B; PDBConstruct 13–351; UniProt 2–340

Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2

Bos taurus

UniProt P63212

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Insufficient information Heteromer Protein × 6 PDB declaration: hexameric(6) Consistent with protein copy count Chain G; UniProt 1–67 Not recorded Soluble cytochrome b562,P2Y purinoceptor 13,LgBiT tag,GFP × 1 (P0ABE7,Q9BPV8,A0A5P9VSM6) Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2,miniGsqi × 1 (P59768) Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 × 1 (P54311) nanobody Nb35 × 1 scFv16 × 1 ADENOSINE-5'-DIPHOSPHATE × 1 ELECTRON MICROSCOPY mmCIF provides none of the parsed experimental conditions Resolution 3.00 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

215 other PDB entries and 216 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name GBG2_BOVIN
Isoform
PDB entities 4
Chains and sequence ranges Author chain G; PDBConstruct 1–67; UniProt 1–67

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.

SAXS scattering curve SAXS Profile

SAXS profile for 24xy

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 24xy
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2. Structure Basics 2. Structure Basics

Entry ID entry_id24xy
Deposition date deposition_date2026-03-24
Structure title titleP2Y13R-Gq complex bound to ADP
Keywords keywordsGPCR, Nucleotide, G protein, SIGNALING PROTEIN; SIGNALING PROTEIN
Experimental Method methodELECTRON MICROSCOPY

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier38.91
Radius of gyration Rg (electron density) rg_electron38.60
Forward intensity I(0) i0287761000.00
Molecular weight molecular_weight138700.0 kDa
Excluded volume excluded_volume173970 ų
Envelope volume envelope_volume234580 ų
Hydration-shell volume shell_volume51786 ų
Envelope diameter envelope_diameter130.1
Shell Rg shell_rg43.15
Envelope Rg envelope_rg38.47
Shape Rg shape_rg38.57
Total Rg total_rg38.98
Total atoms total_atoms9754
Residues n_residues1236
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 −1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax122.5
Rg (real space) rg_real38.88
Rg uncertainty (real space) rg_real_error0.87
I(0) (real space) i0_real2.8780e+08
I(0) uncertainty (real space) i0_real_error4.5700e+06
Rg (reciprocal space) rg_reciprocal38.90
I(0) (reciprocal space) i0_reciprocal287800000.0000
Solution quality estimate total_estimate0.6900
Solution quality rating solution_quality REASONABLE a REASONABLE solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary44.8
Skewness Skewness skewness0.224
Kurtosis Kurtosis kurtosis-0.630
Angular range angular_range— – 0.2050 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha49680000.0000
Real-space data points n_real_points42
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.963; Stabil: 1.000; Sysdev: 0.132; Positv: 1.000; Valcen: 0.994; Smooth: 0.686

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (7)

8. Citations (1)

9. Files and Curves (10)