4bbf

Aminoalkylpyrimidine Inhibitor Complexes with JAK2

Method: X-RAY DIFFRACTION Dmax: 118.6 Å Quality: REASONABLE

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 839–1132 Fragment:PROTEIN TYROSINE KINASE DOMAIN, RESIDUES 839-1132 Mutation:YES O19 (2R)-N-[4-[2-[(4-morpholin-4-ylphenyl)amino]pyrimidin-4-yl]phenyl]pyrrolidine-2-carboxamide × 1 X-RAY DIFFRACTION X-ray crystallization conditions:pH 7;pH 7 Resolution 2.00 Å R-free 0.289
2 Protein monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain B; UniProt 839–1132 Fragment:PROTEIN TYROSINE KINASE DOMAIN, RESIDUES 839-1132 Mutation:YES O19 (2R)-N-[4-[2-[(4-morpholin-4-ylphenyl)amino]pyrimidin-4-yl]phenyl]pyrrolidine-2-carboxamide × 1 X-RAY DIFFRACTION X-ray crystallization conditions:pH 7;pH 7 Resolution 2.00 Å R-free 0.289
3 Protein monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain C; UniProt 839–1132 Fragment:PROTEIN TYROSINE KINASE DOMAIN, RESIDUES 839-1132 Mutation:YES O19 (2R)-N-[4-[2-[(4-morpholin-4-ylphenyl)amino]pyrimidin-4-yl]phenyl]pyrrolidine-2-carboxamide × 1 X-RAY DIFFRACTION X-ray crystallization conditions:pH 7;pH 7 Resolution 2.00 Å R-free 0.289
4 Protein monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain D; UniProt 839–1132 Fragment:PROTEIN TYROSINE KINASE DOMAIN, RESIDUES 839-1132 Mutation:YES O19 (2R)-N-[4-[2-[(4-morpholin-4-ylphenyl)amino]pyrimidin-4-yl]phenyl]pyrrolidine-2-carboxamide × 1 X-RAY DIFFRACTION X-ray crystallization conditions:pH 7;pH 7 Resolution 2.00 Å R-free 0.289

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 248 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 3–296; UniProt 839–1132 Author chain B; PDBConstruct 3–296; UniProt 839–1132 Author chain C; PDBConstruct 3–296; UniProt 839–1132 Author chain D; PDBConstruct 3–296; UniProt 839–1132

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 4bbf

P(r) Distance Distribution P(r) Distribution

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

Entry ID entry_id4bbf
Deposition date deposition_date2012-09-21
Structure title titleAminoalkylpyrimidine Inhibitor Complexes with JAK2
Keywords keywordsTRANSFERASE, INHIBITOR; TRANSFERASE
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier37.32
Radius of gyration Rg (electron density) rg_electron36.52
Forward intensity I(0) i0280784000.00
Molecular weight molecular_weight136950.0 kDa
Excluded volume excluded_volume171980 ų
Envelope volume envelope_volume227210 ų
Hydration-shell volume shell_volume51326 ų
Envelope diameter envelope_diameter126.3
Shell Rg shell_rg43.08
Envelope Rg envelope_rg36.13
Shape Rg shape_rg36.51
Total Rg total_rg37.00
Total atoms total_atoms9648
Residues n_residues1152
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 dmax118.6
Rg (real space) rg_real37.15
Rg uncertainty (real space) rg_real_error0.83
I(0) (real space) i0_real2.8080e+08
I(0) uncertainty (real space) i0_real_error4.8750e+06
Rg (reciprocal space) rg_reciprocal37.26
I(0) (reciprocal space) i0_reciprocal280800000.0000
Solution quality estimate total_estimate0.6739
Solution quality rating solution_quality REASONABLE a REASONABLE solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary50.8
Skewness Skewness skewness0.129
Kurtosis Kurtosis kurtosis-0.532
Angular range angular_range— – 0.2100 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha62410000.0000
Real-space data points n_real_points43
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.923; Stabil: 1.000; Sysdev: 0.020; Positv: 1.000; Valcen: 0.995; Smooth: 0.932

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (3)

7. Fold Classification (SCOP + CATH) 12 domains

SCOP 2.08 (4 domains)

Domain ID domain_idd4bbfa_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.144 — Protein kinase-like (PK-like)
Superfamily Superfamily superfamilyd.144.1 — Protein kinase-like (PK-like)
Family Family familyd.144.1.0 — automated matches
Domain ID domain_idd4bbfb_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.144 — Protein kinase-like (PK-like)
Superfamily Superfamily superfamilyd.144.1 — Protein kinase-like (PK-like)
Family Family familyd.144.1.0 — automated matches
Domain ID domain_idd4bbfc_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.144 — Protein kinase-like (PK-like)
Superfamily Superfamily superfamilyd.144.1 — Protein kinase-like (PK-like)
Family Family familyd.144.1.0 — automated matches
Domain ID domain_idd4bbfd_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.144 — Protein kinase-like (PK-like)
Superfamily Superfamily superfamilyd.144.1 — Protein kinase-like (PK-like)
Family Family familyd.144.1.0 — automated matches

CATH v4.4 (8 domains)

Domain ID domain_id4bbfA01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology200 — Phosphorylase Kinase; domain 1
Homologous superfamily homologous superfamily20 — Phosphorylase Kinase; domain 1
Domain ID domain_id4bbfA02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology510 — Transferase(Phosphotransferase); domain 1
Homologous superfamily homologous superfamily10 — Transferase(Phosphotransferase) domain 1
Domain ID domain_id4bbfB01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology200 — Phosphorylase Kinase; domain 1
Homologous superfamily homologous superfamily20 — Phosphorylase Kinase; domain 1
Domain ID domain_id4bbfB02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology510 — Transferase(Phosphotransferase); domain 1
Homologous superfamily homologous superfamily10 — Transferase(Phosphotransferase) domain 1
Domain ID domain_id4bbfC01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology200 — Phosphorylase Kinase; domain 1
Homologous superfamily homologous superfamily20 — Phosphorylase Kinase; domain 1
Domain ID domain_id4bbfC02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology510 — Transferase(Phosphotransferase); domain 1
Homologous superfamily homologous superfamily10 — Transferase(Phosphotransferase) domain 1
Domain ID domain_id4bbfD01
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology200 — Phosphorylase Kinase; domain 1
Homologous superfamily homologous superfamily20 — Phosphorylase Kinase; domain 1
Domain ID domain_id4bbfD02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology510 — Transferase(Phosphotransferase); domain 1
Homologous superfamily homologous superfamily10 — Transferase(Phosphotransferase) domain 1

8. Citations (1)

9. Files and Curves (10)