8jf4

The crystal structure of human AURKA kinase domain in complex with AURKA-compound 9

Method: X-RAY DIFFRACTION Dmax: 64.4 Å Quality: GOOD

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

Aurora kinase A

Homo sapiens

UniProt O14965

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 A; UniProt 127–389 Not recorded C0N 2-[4-[4-[bis(oxidanylidene)-$l^5-sulfanyl]oxyphenyl]carbonylpiperazin-1-yl]-6-[(5-cyclopropyl-1H-pyrazol-3-yl)amino]-N-prop-2-ynyl-pyrimidine-4-carboxamide × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;293 K;0.2 M lithium sulfate, 0.1 M TRIS pH 8.5, 25% w/v PEG 3350 Resolution 2.89 Å R-free 0.300

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.

190 other PDB entries and 232 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name AURKA_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–263; UniProt 127–389

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 8jf4

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 8jf4
Download Download

2. Structure Basics 2. Structure Basics

Entry ID entry_id8jf4
Deposition date deposition_date2023-05-17
Structure title titleThe crystal structure of human AURKA kinase domain in complex with AURKA-compound 9
Keywords keywordsLysine inhibitor, CYTOKINE; CYTOKINE
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier19.95
Radius of gyration Rg (electron density) rg_electron18.85
Forward intensity I(0) i013730100.00
Molecular weight molecular_weight28472.0 kDa
Excluded volume excluded_volume35851 ų
Envelope volume envelope_volume41593 ų
Hydration-shell volume shell_volume18775 ų
Envelope diameter envelope_diameter64.4
Shell Rg shell_rg24.71
Envelope Rg envelope_rg18.92
Shape Rg shape_rg18.85
Total Rg total_rg19.72
Total atoms total_atoms2039
Residues n_residues252
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 dmax64.4
Rg (real space) rg_real19.88
Rg uncertainty (real space) rg_real_error0.38
I(0) (real space) i0_real1.3730e+07
I(0) uncertainty (real space) i0_real_error1.8320e+05
Rg (reciprocal space) rg_reciprocal19.89
I(0) (reciprocal space) i0_reciprocal13730000.0000
Solution quality estimate total_estimate0.8842
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary25.4
Skewness Skewness skewness0.278
Kurtosis Kurtosis kurtosis-0.301
Angular range angular_range— – 0.4000 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha3081000.0000
Real-space data points n_real_points72
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.858; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.999; Smooth: 0.919

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (2)

8. Citations (1)

9. Files and Curves (10)