9hnb

X-ray structure of the adduct formed upon reaction of the diiodido analogue of picoplatin with human serum albumin

Method: X-RAY DIFFRACTION Dmax: 86.4 Å Quality: GOOD

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

Serum albumin

OrganismNot specified

UniProt P02768

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 monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain AAA; UniProt 25–609 Not recorded PT PLATINUM (II) ION × 3 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7.5;293 K;25-30% PEG3350 -50 mM potassium phosphate buffer pH 7.5 Resolution 3.90 Å R-free 0.328

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.

187 other PDB entries and 271 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name ALBU_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain AAA; PDBConstruct 1–585; UniProt 25–609

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 9hnb

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 9hnb
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2. Structure Basics 2. Structure Basics

Entry ID entry_id9hnb
Deposition date deposition_date2024-12-10
Structure title titleX-ray structure of the adduct formed upon reaction of the diiodido analogue of picoplatin with human serum albumin
Keywords keywordsplatin, interaction, metallodrug, picoplatin, diiodido analogue, albumin, HYDROLASE; HYDROLASE
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier26.78
Radius of gyration Rg (electron density) rg_electron25.75
Forward intensity I(0) i063611600.00
Molecular weight molecular_weight60495.0 kDa
Excluded volume excluded_volume74824 ų
Envelope volume envelope_volume94395 ų
Hydration-shell volume shell_volume30724 ų
Envelope diameter envelope_diameter89.4
Shell Rg shell_rg32.89
Envelope Rg envelope_rg25.90
Shape Rg shape_rg25.74
Total Rg total_rg26.55
Total atoms total_atoms4198
Residues n_residues543
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 dmax86.4
Rg (real space) rg_real26.68
Rg uncertainty (real space) rg_real_error0.52
I(0) (real space) i0_real6.3610e+07
I(0) uncertainty (real space) i0_real_error8.4970e+05
Rg (reciprocal space) rg_reciprocal26.72
I(0) (reciprocal space) i0_reciprocal63610000.0000
Solution quality estimate total_estimate0.8998
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary32.2
Skewness Skewness skewness0.231
Kurtosis Kurtosis kurtosis-0.399
Angular range angular_range— – 0.2950 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha8278000.0000
Real-space data points n_real_points60
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.904; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.999; Smooth: 0.982

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (2)

8. Citations (1)

9. Files and Curves (10)