3p33

Insulin fibrillation is the Janus face of induced fit. A chiral clamp stabilizes the native state at the expense of activity

Method: X-RAY DIFFRACTION Dmax: 82.2 Å Quality: GOOD

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

Insulin

OrganismNot specified

UniProt P01308

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 × 6 PDB declaration: hexameric(6) Consistent with protein copy count Chain A; UniProt 90–110 Chain B; UniProt 25–54 Fragment:unp residues 90-110 Fragment:unp residues 25-54 IPH PHENOL × 3 ZN ZINC ION × 3 CL CHLORIDE ION × 3 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 8.3;298 K;0.05 M sodium citrate, 1% phenol, 0.04% zinc acetate, pH 8.3, VAPOR DIFFUSION, HANGING DROP, temperature 298K Resolution 2.30 Å R-free 0.299
2 Protein homooligomer Homooligomer Protein × 6 PDB declaration: hexameric(6) Consistent with protein copy count Chain C; UniProt 90–110 Chain D; UniProt 25–54 Fragment:unp residues 90-110 Fragment:unp residues 25-54 IPH PHENOL × 3 ZN ZINC ION × 3 CL CHLORIDE ION × 3 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 8.3;298 K;0.05 M sodium citrate, 1% phenol, 0.04% zinc acetate, pH 8.3, VAPOR DIFFUSION, HANGING DROP, temperature 298K Resolution 2.30 Å R-free 0.299
3 Protein homooligomer Homooligomer Protein × 6 PDB declaration: hexameric(6) Consistent with protein copy count Chain E; UniProt 90–110 Chain F; UniProt 25–54 Fragment:unp residues 90-110 Fragment:unp residues 25-54 IPH PHENOL × 3 ZN ZINC ION × 3 CL CHLORIDE ION × 3 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 8.3;298 K;0.05 M sodium citrate, 1% phenol, 0.04% zinc acetate, pH 8.3, VAPOR DIFFUSION, HANGING DROP, temperature 298K Resolution 2.30 Å R-free 0.299
4 Protein homooligomer Homooligomer Protein × 6 PDB declaration: hexameric(6) Consistent with protein copy count Chain G; UniProt 90–110 Chain H; UniProt 25–54 Fragment:unp residues 90-110 Fragment:unp residues 25-54 IPH PHENOL × 3 ZN ZINC ION × 3 CL CHLORIDE ION × 3 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 8.3;298 K;0.05 M sodium citrate, 1% phenol, 0.04% zinc acetate, pH 8.3, VAPOR DIFFUSION, HANGING DROP, temperature 298K Resolution 2.30 Å R-free 0.299

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.

369 other PDB entries and 580 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name INS_HUMAN
Isoform
PDB entities 1, 2
Chains and sequence ranges Author chain A; PDBConstruct 1–21; UniProt 90–110 Author chain C; PDBConstruct 1–21; UniProt 90–110 Author chain E; PDBConstruct 1–21; UniProt 90–110 Author chain G; PDBConstruct 1–21; UniProt 90–110 Author chain B; PDBConstruct 1–30; UniProt 25–54 Author chain D; PDBConstruct 1–30; UniProt 25–54 Author chain F; PDBConstruct 1–30; UniProt 25–54 Author chain H; 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 3p33

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 3p33
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2. Structure Basics 2. Structure Basics

Entry ID entry_id3p33
Deposition date deposition_date2010-10-04
Structure title titleInsulin fibrillation is the Janus face of induced fit. A chiral clamp stabilizes the native state at the expense of activity
Keywords keywordszinc-binding site, long-acting insulin analog, receptor binding protein engineering, global health, insulin fibrillation, HORMONE; HORMONE
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier23.99
Radius of gyration Rg (electron density) rg_electron23.88
Forward intensity I(0) i011010000.00
Molecular weight molecular_weight24026.0 kDa
Excluded volume excluded_volume29619 ų
Envelope volume envelope_volume38305 ų
Hydration-shell volume shell_volume15058 ų
Envelope diameter envelope_diameter81.7
Shell Rg shell_rg27.95
Envelope Rg envelope_rg23.94
Shape Rg shape_rg23.86
Total Rg total_rg24.52
Total atoms total_atoms1656
Residues n_residues204
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 dmax82.2
Rg (real space) rg_real24.35
Rg uncertainty (real space) rg_real_error0.80
I(0) (real space) i0_real1.1010e+07
I(0) uncertainty (real space) i0_real_error1.7350e+05
Rg (reciprocal space) rg_reciprocal24.27
I(0) (reciprocal space) i0_reciprocal11010000.0000
Solution quality estimate total_estimate0.7644
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary19.3
Skewness Skewness skewness0.537
Kurtosis Kurtosis kurtosis-0.519
Angular range angular_range— – 0.3300 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha1880000.0000
Real-space data points n_real_points65
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.552; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.357; Smooth: 0.922

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (6)

8. Citations (7)

9. Files and Curves (10)