4oga

Insulin in complex with Site 1 of the human insulin receptor

Method: X-RAY DIFFRACTION Dmax: 100.4 Å Quality: GOOD

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

Insulin A chain

Homo sapiens

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 Other combination Heteromer Protein × 6 其他Polymer 2 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 monoclonal antibody fab 83-7 fragment - heavy chain × 1 monoclonal antibody fab 83-7 fragment - light chain × 1 Insulin receptor domains L1-CR × 1 (P06213) Insulin receptor alpha-CT peptide × 1 (P06213) ;alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 ;beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 8;293 K;0.9-1.1M TRI-SODIUM CITRATE, 0.1M IMIDAZOLE-HCL, 0.02% SODIUM AZIDE, PH 8.0 , VAPOR DIFFUSION, HANGING DROP, temperature 293K Resolution 3.50 Å R-free 0.284

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 583 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 B; PDBConstruct 1–30; UniProt 25–54

Insulin receptor domains L1-CR

Homo sapiens

UniProt P06213

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Other combination Heteromer Protein × 6 其他Polymer 2 PDB declaration: hexameric(6) Consistent with protein copy count Chain E; UniProt 28–337 Chain F; UniProt 731–746 Fragment:L1-CR, UNP residues 28-377 Fragment:alpha-CT peptide, UNP residues 731-746 Insulin A chain × 1 (P01308) Insulin B chain × 1 (P01308) monoclonal antibody fab 83-7 fragment - heavy chain × 1 monoclonal antibody fab 83-7 fragment - light chain × 1 ;alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 ;beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 8;293 K;0.9-1.1M TRI-SODIUM CITRATE, 0.1M IMIDAZOLE-HCL, 0.02% SODIUM AZIDE, PH 8.0 , VAPOR DIFFUSION, HANGING DROP, temperature 293K Resolution 3.50 Å R-free 0.284

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.

85 other PDB entries and 99 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name INSR_HUMAN
Isoform
PDB entities 5, 6
Chains and sequence ranges Author chain E; PDBConstruct 1–310; UniProt 28–337 Author chain F; PDBConstruct 1–16; UniProt 731–746

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 4oga

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 4oga
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2. Structure Basics 2. Structure Basics

Entry ID entry_id4oga
Deposition date deposition_date2014-01-15
Structure title titleInsulin in complex with Site 1 of the human insulin receptor
Keywords keywordsCELL SURFACE RECEPTOR/IMMUNE SYSTEM, INSULIN RECEPTOR, CT PEPTIDE, INSULIN, HORMONE RECEPTOR-HORMONE-IMMUNE SYSTEM complex; HORMONE RECEPTOR/HORMONE/IMMUNE SYSTEM
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier29.54
Radius of gyration Rg (electron density) rg_electron29.17
Forward intensity I(0) i075798000.00
Molecular weight molecular_weight67110.0 kDa
Excluded volume excluded_volume83373 ų
Envelope volume envelope_volume104520 ų
Hydration-shell volume shell_volume30952 ų
Envelope diameter envelope_diameter106.8
Shell Rg shell_rg35.06
Envelope Rg envelope_rg29.42
Shape Rg shape_rg29.16
Total Rg total_rg29.78
Total atoms total_atoms4693
Residues n_residues577
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 dmax100.4
Rg (real space) rg_real29.66
Rg uncertainty (real space) rg_real_error0.88
I(0) (real space) i0_real7.5800e+07
I(0) uncertainty (real space) i0_real_error1.1420e+06
Rg (reciprocal space) rg_reciprocal29.61
I(0) (reciprocal space) i0_reciprocal75800000.0000
Solution quality estimate total_estimate0.8754
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary31.6
Skewness Skewness skewness0.452
Kurtosis Kurtosis kurtosis-0.315
Angular range angular_range— – 0.2700 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha11350000.0000
Real-space data points n_real_points55
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.827; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.946; Smooth: 0.947

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (9)

7. Fold Classification (SCOP + CATH) 4 domains

CATH v4.4 (4 domains)

Domain ID domain_id4ogaC00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id4ogaD00
Class class2 — Mainly Beta
Architecture architecture60 — Sandwich
Topology topology40 — Immunoglobulin-like
Homologous superfamily homologous superfamily10 — Immunoglobulins
Domain ID domain_id4ogaE01
Class class3 — Alpha Beta
Architecture architecture80 — Alpha-Beta Horseshoe
Topology topology20 — 24 nucleotide stem-loop, u2 snrnp hairpin iv. U2 a'; Chain A
Homologous superfamily homologous superfamily20 — Receptor L-domain
Domain ID domain_id4ogaE02
Class class2 — Mainly Beta
Architecture architecture10 — Ribbon
Topology topology220 — Hormone Receptor, Insulin-like Growth Factor Receptor 1; Chain A domain 2
Homologous superfamily homologous superfamily10 — Hormone Receptor, Insulin-like Growth Factor Receptor 1; Chain A, domain 2

8. Citations (1)

9. Files and Curves (10)