8bm2

Crystal structure of JAK2 JH1 in complex with gandotinib

Method: X-RAY DIFFRACTION Dmax: 95.1 Å Quality: EXCELLENT

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

Tyrosine-protein kinase JAK2

Homo sapiens

UniProt O60674

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 840–1132 Non-standard monomer:Yes (specific site not provided by mmCIF) QQC 3-[(4-chloranyl-2-fluoranyl-phenyl)methyl]-2-methyl-~{N}-(5-methyl-1~{H}-pyrazol-3-yl)-8-(morpholin-4-ylmethyl)imidazo[1,2-b]pyridazin-6-amine × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 8.2;295 K;1.7 M Na-malonate, 0.1 M Gly-Gly pH 8.2 Resolution 1.50 Å R-free 0.202
2 Protein monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain B; UniProt 840–1132 Non-standard monomer:Yes (specific site not provided by mmCIF) QQC 3-[(4-chloranyl-2-fluoranyl-phenyl)methyl]-2-methyl-~{N}-(5-methyl-1~{H}-pyrazol-3-yl)-8-(morpholin-4-ylmethyl)imidazo[1,2-b]pyridazin-6-amine × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 8.2;295 K;1.7 M Na-malonate, 0.1 M Gly-Gly pH 8.2 Resolution 1.50 Å R-free 0.202

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.

161 other PDB entries and 250 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name JAK2_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 25–317; UniProt 840–1132 Author chain B; PDBConstruct 25–317; UniProt 840–1132

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 8bm2

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 8bm2
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2. Structure Basics 2. Structure Basics

Entry ID entry_id8bm2
Deposition date deposition_date2022-11-10
Structure title titleCrystal structure of JAK2 JH1 in complex with gandotinib
Keywords keywordsJanus kinase, inhibitor complex, JAK2, JH1, TRANSFERASE; TRANSFERASE
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier30.20
Radius of gyration Rg (electron density) rg_electron29.20
Forward intensity I(0) i082472500.00
Molecular weight molecular_weight71156.0 kDa
Excluded volume excluded_volume88864 ų
Envelope volume envelope_volume115280 ų
Hydration-shell volume shell_volume32629 ų
Envelope diameter envelope_diameter96.1
Shell Rg shell_rg36.73
Envelope Rg envelope_rg29.00
Shape Rg shape_rg29.16
Total Rg total_rg30.03
Total atoms total_atoms9881
Residues n_residues596
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 dmax95.1
Rg (real space) rg_real30.18
Rg uncertainty (real space) rg_real_error0.48
I(0) (real space) i0_real8.2470e+07
I(0) uncertainty (real space) i0_real_error1.1360e+06
Rg (reciprocal space) rg_reciprocal30.19
I(0) (reciprocal space) i0_reciprocal82470000.0000
Solution quality estimate total_estimate0.9037
Solution quality rating solution_quality EXCELLENT a EXCELLENT solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary29.3
Skewness Skewness skewness0.258
Kurtosis Kurtosis kurtosis-0.641
Angular range angular_range— – 0.2600 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha37460000.0000
Real-space data points n_real_points53
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.946; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.977; Smooth: 0.929

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (3)

8. Citations (1)

9. Files and Curves (10)