8avo

Human leptin in complex with the human LEP-R ectodomain fused to a C-terminal trimeric isoleucine GCN4 zipper (open 3:3 model).

Method: ELECTRON MICROSCOPY Dmax: 175.1 Å Quality: GOOD

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

Leptin

Homo sapiens

UniProt P41159

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 heterocomplex Heteromer Protein × 6 PDB declaration: hexameric(6) Consistent with protein copy count Chain A; UniProt 22–167 Chain C; UniProt 22–167 Chain E; UniProt 22–167 Not recorded Leptin receptor × 3 (P48357) ELECTRON MICROSCOPY cryo-EM buffer:pH 7.4;20 mM HEPES, 150 mM NaCl, pH 7.4 cryo-EM vitrification conditions:Cryogen ETHANE Resolution 6.84 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.

9 other PDB entries and 13 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name LEP_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 26–171; UniProt 22–167 Author chain C; PDBConstruct 26–171; UniProt 22–167 Author chain E; PDBConstruct 26–171; UniProt 22–167

Leptin receptor

Homo sapiens

UniProt P48357

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 heterocomplex Heteromer Protein × 6 PDB declaration: hexameric(6) Consistent with protein copy count Chain B; UniProt 22–839 Chain D; UniProt 22–839 Chain F; UniProt 22–839 Not recorded Leptin × 3 (P41159) ELECTRON MICROSCOPY cryo-EM buffer:pH 7.4;20 mM HEPES, 150 mM NaCl, pH 7.4 cryo-EM vitrification conditions:Cryogen ETHANE Resolution 6.84 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.

8 other PDB entries and 12 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name LEPR_HUMAN
Isoform
PDB entities 2
Chains and sequence ranges Author chain B; PDBConstruct 1–818; UniProt 22–839 Author chain D; PDBConstruct 1–818; UniProt 22–839 Author chain F; PDBConstruct 1–818; UniProt 22–839

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 8avo

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 8avo
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2. Structure Basics 2. Structure Basics

Entry ID entry_id8avo
Deposition date deposition_date2022-08-26
Structure title titleHuman leptin in complex with the human LEP-R ectodomain fused to a C-terminal trimeric isoleucine GCN4 zipper (open 3:3 model).
Keywords keywordsleptin, LEP-R, obesity, metabolism, energy balance, CYTOKINE; CYTOKINE
Experimental Method methodELECTRON MICROSCOPY

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

Radius of gyration Rg (Guinier) rg_guinier58.20
Radius of gyration Rg (electron density) rg_electron57.69
Forward intensity I(0) i0853940000.00
Molecular weight molecular_weight252840.0 kDa
Excluded volume excluded_volume319680 ų
Envelope volume envelope_volume578370 ų
Hydration-shell volume shell_volume83944 ų
Envelope diameter envelope_diameter181.3
Shell Rg shell_rg62.29
Envelope Rg envelope_rg53.67
Shape Rg shape_rg57.70
Total Rg total_rg57.83
Total atoms total_atoms17811
Residues n_residues2226
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 dmax175.1
Rg (real space) rg_real57.75
Rg uncertainty (real space) rg_real_error1.53
I(0) (real space) i0_real8.5390e+08
I(0) uncertainty (real space) i0_real_error1.7220e+07
Rg (reciprocal space) rg_reciprocal58.57
I(0) (reciprocal space) i0_reciprocal855000000.0000
Solution quality estimate total_estimate0.8577
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary84.3
Skewness Skewness skewness-0.149
Kurtosis Kurtosis kurtosis-0.478
Angular range angular_range— – 0.1350 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha32280000.0000
Real-space data points n_real_points28
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.861; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.956; Smooth: 0.607

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (2)

8. Citations (1)

9. Files and Curves (10)