4jaj

Crystal Structure of Aurora Kinase A in complex with BENZO[C][1,8]NAPHTHYRIDIN-6(5H)-ONE

Method: X-RAY DIFFRACTION Dmax: 63.8 Å Quality: REASONABLE

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 122–396 Fragment:Aurora2 Kinase (UNP RESIDUES 122-396) XU1 benzo[c][1,8]naphthyridin-6(5H)-one × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 9;293 K;20% PEG MME 550, 0.1 M Bicine pH 9.0, 0.1 M NaCl , VAPOR DIFFUSION, SITTING DROP, temperature 293K Resolution 2.70 Å R-free 0.323

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 10–284; UniProt 122–396

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 4jaj

P(r) Distance Distribution P(r) Distribution

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

Entry ID entry_id4jaj
Deposition date deposition_date2013-02-18
Structure title titleCrystal Structure of Aurora Kinase A in complex with BENZO[C][1,8]NAPHTHYRIDIN-6(5H)-ONE
Keywords keywords;KINASE INHIBITOR COMPLEX, ATP-BINDING, CELL CYCLE, CYTOPLASM, CYTOSKELETON, NUCLEOTIDE-BINDING, PHOSPHOPROTEIN, SERINE/THREONINE-PROTEIN KINASE, TRANSFERASE, Protein kinase-like Cytoplasm, transferase-transferase inhibitor complex ;; transferase/transferase inhibitor
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier19.99
Radius of gyration Rg (electron density) rg_electron18.85
Forward intensity I(0) i015737900.00
Molecular weight molecular_weight30797.0 kDa
Excluded volume excluded_volume38921 ų
Envelope volume envelope_volume44946 ų
Hydration-shell volume shell_volume19896 ų
Envelope diameter envelope_diameter65.5
Shell Rg shell_rg25.19
Envelope Rg envelope_rg19.12
Shape Rg shape_rg18.83
Total Rg total_rg19.81
Total atoms total_atoms2179
Residues n_residues265
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 dmax63.8
Rg (real space) rg_real19.92
Rg uncertainty (real space) rg_real_error0.29
I(0) (real space) i0_real1.5740e+07
I(0) uncertainty (real space) i0_real_error1.9300e+05
Rg (reciprocal space) rg_reciprocal19.93
I(0) (reciprocal space) i0_reciprocal15740000.0000
Solution quality estimate total_estimate0.6740
Solution quality rating solution_quality REASONABLE a REASONABLE solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary26.1
Skewness Skewness skewness0.277
Kurtosis Kurtosis kurtosis-0.276
Angular range angular_range— – 0.4000 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha4909000.0000
Real-space data points n_real_points72
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.860; Stabil: 1.000; Sysdev: 0.062; Positv: 1.000; Valcen: 1.000; Smooth: 0.991

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (3)

7. Fold Classification (SCOP + CATH) 3 domains

SCOP 2.08 (1 domains)

Domain ID domain_idd4jaja_
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.144.1.7 — Protein kinases, catalytic subunit

CATH v4.4 (2 domains)

Domain ID domain_id4jajA01
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_id4jajA02
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)