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8i40

Crystal structure of ASCT from Trypanosoma brucei in complex with CoA.

Method: X-RAY DIFFRACTION Dmax: 115.5 Å Quality: EXCELLENT
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1. Protein Identity and Related Structures Protein Identity & Related Structures

Succinyl-CoA:3-ketoacid-coenzyme A transferase

Trypanosoma brucei brucei (strain 927/4 GUTat10.1)

UniProt Q386P1

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 × 4 PDB declaration: tetrameric（4） Consistent with protein copy count Chain A； UniProt 10–492 Chain B； UniProt 10–492 Chain C； UniProt 10–492 Chain D； UniProt 10–492 Not recorded COA COENZYME A × 2 ACT ACETATE ION × 1 CA CALCIUM ION × 4 X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, HANGING DROP；pH 7.4；293 K；0.05M HEPES-NAOH BUFFER PH 7.4, 18% (W/V) PEG 3350, 0.35M CaCl2 Resolution 2.79 Å R-free 0.284

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.

Other PDB Difference from Current Entry 8I40 Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
8I3Y Crystal structure of ASCT from Trypanosoma brucei in complex with Succinyl-CoA. Deposited 2023-01-18 Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric
Chain A 10–492（483 aa）
Chain B 10–492（483 aa）
Chain C 10–492（483 aa）
Chain D 10–492（483 aa）
Not recorded SCA SUCCINYL-COENZYME A × 1 CA CALCIUM ION × 4 SIN SUCCINIC ACID × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.4；293 K；0.05M HEPES-NAOH BUFFER, 18% (W/V) PEG 3350, 0.35M CaCl2
Resolution 2.40 Å R-free 0.251
9XMY Crystal structure of ASCT D62N mutant from Trypanosoma brucei in complex with succinyl-CoA and acetylacetone. Deposited 2025-11-11 Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric
Chain A 1–493（493 aa）
Chain B 1–493（493 aa）
Chain C 1–493（493 aa）
Chain D 1–493（493 aa）
Mutation：D62N Mutation：D62N Mutation：D62N Mutation：D62N AAE ACETOACETIC ACID × 2 CA CALCIUM ION × 4 SCA SUCCINYL-COENZYME A × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.4；293 K；0.05M HEPES-NAOH BUFFER, 18% (W/V) PEG 3350, 0.35M CACL2
Resolution 2.60 Å R-free 0.296

2 other PDB entries and 2 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name Q386P1_TRYB2
Isoform —
PDB entities 1
Chains and sequence ranges Author chain A； PDBConstruct 1–483； UniProt 10–492 Author chain B； PDBConstruct 1–483； UniProt 10–492 Author chain C； PDBConstruct 1–483； UniProt 10–492 Author chain D； PDBConstruct 1–483； UniProt 10–492

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 8i40

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 8i40
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2. Structure Basics 2. Structure Basics

Entry ID entry_id8i40
Deposition date deposition_date2023-01-18
Structure title titleCrystal structure of ASCT from Trypanosoma brucei in complex with CoA.
Keywords keywordsTrypanosoma brucei, Acetate:succinate CoA transferase, ELECTRON TRANSPORT; ELECTRON TRANSPORT
Experimental Method methodX-RAY DIFFRACTION
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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier38.18 Å
Radius of gyration Rg (electron density) rg_electron37.35 Å
Forward intensity I(0) i0626850000.00
Molecular weight molecular_weight202270.0 kDa
Excluded volume excluded_volume252290 ų
Envelope volume envelope_volume320580 ų
Hydration-shell volume shell_volume66881 ų
Envelope diameter envelope_diameter121.0 Å
Shell Rg shell_rg46.79 Å
Envelope Rg envelope_rg37.25 Å
Shape Rg shape_rg37.36 Å
Total Rg total_rg37.84 Å
Total atoms total_atoms14164
Residues n_residues1868
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 Å−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
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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax115.5 Å
Rg (real space) rg_real37.91 Å
Rg uncertainty (real space) rg_real_error0.60 Å
I(0) (real space) i0_real6.2690e+08
I(0) uncertainty (real space) i0_real_error1.0420e+07
Rg (reciprocal space) rg_reciprocal38.08 Å
I(0) (reciprocal space) i0_reciprocal627000000.0000
Solution quality estimate total_estimate0.9092
Solution quality rating solution_quality EXCELLENT a EXCELLENT solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary47.9 Å
Skewness Skewness skewness0.080
Kurtosis Kurtosis kurtosis-0.644
Angular range angular_range— – 0.2050 Å−1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha131600000.0000
Real-space data points n_real_points42
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.961; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.982; Smooth: 0.949
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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (5)

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8. Citations (1)

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9. Files and Curves (10)