3gky

The Structural Basis of an ER Stress-Associated Bottleneck in a Protein Folding Landscape

Method: X-RAY DIFFRACTION Dmax: 47.8 Å Quality: GOOD

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

Insulin A chain

OrganismNot specified

UniProt P01315

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein homooligomer Homooligomer Protein × 12 PDB declaration: dodecameric(12) Consistent with protein copy count Chain A; UniProt 88–108 Chain B; UniProt 25–54 Chain C; UniProt 88–108 Chain D; UniProt 25–54 Not recorded ZN ZINC ION × 6 CL CHLORIDE ION × 6 IPH PHENOL × 3 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 8.1;298 K;0.02 M Tris, 0.05 M sodium citrate, 5% acetone, 0.03% phenol, 0.01% zinc acetate, pH 8.1, VAPOR DIFFUSION, HANGING DROP, temperature 298K Resolution 1.80 Å R-free 0.253

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.

41 other PDB entries and 126 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name INS_PIG
Isoform
PDB entities 1, 2
Chains and sequence ranges Author chain A; PDBConstruct 1–21; UniProt 88–108 Author chain C; PDBConstruct 1–21; UniProt 88–108 Author chain B; PDBConstruct 1–30; UniProt 25–54 Author chain D; PDBConstruct 1–30; UniProt 25–54

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 3gky

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 3gky
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2. Structure Basics 2. Structure Basics

Entry ID entry_id3gky
Deposition date deposition_date2009-03-11
Structure title titleThe Structural Basis of an ER Stress-Associated Bottleneck in a Protein Folding Landscape
Keywords keywords;protein folding, ER stress-associated, TR transition receptor binding, Carbohydrate metabolism, Cleavage on pair of basic residues, Diabetes mellitus, Disease mutation, Disulfide bond, Glucose metabolism, Hormone, Pharmaceutical, Secreted ;; HORMONE
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier14.80
Radius of gyration Rg (electron density) rg_electron13.65
Forward intensity I(0) i03127960.00
Molecular weight molecular_weight11903.0 kDa
Excluded volume excluded_volume14603 ų
Envelope volume envelope_volume16895 ų
Hydration-shell volume shell_volume10802 ų
Envelope diameter envelope_diameter45.9
Shell Rg shell_rg18.94
Envelope Rg envelope_rg14.02
Shape Rg shape_rg13.62
Total Rg total_rg14.83
Total atoms total_atoms821
Residues n_residues102
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 dmax47.8
Rg (real space) rg_real14.75
Rg uncertainty (real space) rg_real_error0.31
I(0) (real space) i0_real3.1280e+06
I(0) uncertainty (real space) i0_real_error3.1760e+04
Rg (reciprocal space) rg_reciprocal14.75
I(0) (reciprocal space) i0_reciprocal3128000.0000
Solution quality estimate total_estimate0.8891
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary18.7
Skewness Skewness skewness0.220
Kurtosis Kurtosis kurtosis-0.358
Angular range angular_range— – 0.5000 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha371900.0000
Real-space data points n_real_points80
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.867; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.957

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (6)

8. Citations (5)

9. Files and Curves (10)