9z8k

Crystal Structure of serine/threonine-protein kinase (AEK1) from Trypanosoma brucei

Method: X-RAY DIFFRACTION Dmax: 94.7 Å Quality: GOOD

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

Serine/threonine-protein kinase

Trypanosoma brucei brucei TREU927

UniProt Q582V7

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 homooligomer Homooligomer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain A; UniProt 54–406 Chain B; UniProt 54–406 Fragment:residues 54-406 Non-standard monomer:Yes (specific site not provided by mmCIF) Fragment:residues 54-406 SO4 SULFATE ION × 11 CL CHLORIDE ION × 10 GOL GLYCEROL × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 5.5;291 K;IDX G2 (25% (w/v) PEG 3350, 0.1 M BIS-TRIS pH 5.5, 0.2 M lithium sulfate. TrbrA.01480.a.WW4.PS38793 at 13.5 mg/mL. The C-terminal tail ~60 residues was disordered in each subunit. Residue Ser 71 in subunit A contained a large amount of density near the OG atom. This was modeled as a phosphoserine (SEP) although this is not a predicted phosphorylation site. plate 20520 G2 drop 1, Puck: PSL-0604, Cryo: 80% crystallant + 20% glycerol Resolution 2.05 Å R-free 0.235

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.

1 other PDB entries and 1 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name Q582V7_TRYB2
Isoform
PDB entities 1, 2
Chains and sequence ranges Author chain A; PDBConstruct 2–354; UniProt 54–406 Author chain B; PDBConstruct 2–354; UniProt 54–406

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 9z8k

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 9z8k
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2. Structure Basics 2. Structure Basics

Entry ID entry_id9z8k
Deposition date deposition_date2025-11-18
最后修订 last_revision2025-11-26
Structure title titleCrystal Structure of serine/threonine-protein kinase (AEK1) from Trypanosoma brucei
Keywords keywordsSSGCID, STRUCTURAL GENOMICS, SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE, AEK1, TRANSFERASE; TRANSFERASE
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier27.93
Radius of gyration Rg (electron density) rg_electron26.89
Forward intensity I(0) i065531500.00
Molecular weight molecular_weight63556.0 kDa
Excluded volume excluded_volume79611 ų
Envelope volume envelope_volume98417 ų
Hydration-shell volume shell_volume30759 ų
Envelope diameter envelope_diameter97.5
Shell Rg shell_rg33.74
Envelope Rg envelope_rg26.99
Shape Rg shape_rg26.89
Total Rg total_rg27.60
Total atoms total_atoms4445
Residues n_residues544
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 dmax94.7
Rg (real space) rg_real27.94
Rg uncertainty (real space) rg_real_error0.68
I(0) (real space) i0_real6.5530e+07
I(0) uncertainty (real space) i0_real_error1.1010e+06
Rg (reciprocal space) rg_reciprocal27.94
I(0) (reciprocal space) i0_reciprocal65530000.0000
Solution quality estimate total_estimate0.8797
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary29.9
Skewness Skewness skewness0.367
Kurtosis Kurtosis kurtosis-0.310
Angular range angular_range— – 0.2850 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha26300000.0000
Real-space data points n_real_points58
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.833; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.976; Smooth: 0.956

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (6)

8. Citations (1)

9. Files and Curves (10)