SAXSdb — 9xmy

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

Succinyl-CoA:3-ketoacid-coenzyme A transferase

Trypanosoma brucei brucei TREU927

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Protein homooligomer	Homooligomer	Protein 4	ACETOACETIC ACID × 2 CALCIUM ION × 4 SUCCINYL-COENZYME A × 2 water × 4	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	Q386P1_TRYB2
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–493； UniProt 1–493 Author chain B； PDBConstruct 1–493； UniProt 1–493 Author chain C； PDBConstruct 1–493； UniProt 1–493 Author chain D； PDBConstruct 1–493； UniProt 1–493

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.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id	9xmy
Deposition date deposition_date	2025-11-11
Last revision last_revision	2026-02-04
Structure title title	Crystal structure of ASCT D62N mutant from Trypanosoma brucei in complex with succinyl-CoA and acetylacetone.
Keywords keywords	Trypanosoma brucei, Acetate:succinate CoA transferase, ELECTRON TRANSPORT; ELECTRON TRANSPORT
Experimental Method method	X-RAY DIFFRACTION

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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

9xmy__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

9xmy__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

9xmy__assembly_1__model_1 | P(r) · Pending

P(r) will be calculated and displayed separately for the same assembly/model.

Rg（Guinier）	38.42 Å
Rg (electron density)	37.61 Å
Total Rg	38.09 Å
Atom count	14321
Residues	1885
Excluded volume	255080 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`9xmy__assembly_1__model_1`	tetrameric （4）	Success	4.1.3-1-20251215 (887e7ef)	View Download

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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (5)

Entity 1 Entity 1 polymer

Description description	Succinyl-CoA:3-ketoacid-coenzyme A transferase
Molecular weight formula_weight	53183.7 kDa
EC 编号 ec_number	2.8.3.5
Mutation mutation	D62N
Source method src_method	man
Copy count entity_count	4

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B,C,D
Atom count atom_count	14398

MLRRTNFFRIGLDKVMSLSSAVQDIKNGATLAVGGFGTGGMPHAIMQEIKKMGVRDLIIYSNGAGVDGYGIGVLFENKQINKMIVSYVGNNKIFARQYLEGDVELEFCPQGSLAERMRAGGAGIPAFYTPTAVGTVLQTGGQITKYDKNGGVLKESTPRETRFFGGRLYCLENAIKTDFSIVKAWKGDRCGNLVFRGTARNFNVPVGQCGQTVIAEVENLVENGDIDPDEVHLPGVYVDRVVVPERYQTLIEHRTVTRHDGAGNKPTKASTRGEEVRQRIARRAALEFANGMYVNLGIGIPTESSNYIPAGVNVVLQSENGLIGMGPFPTEDKVDADWINAGKQTISHLAGSALFDSATSFAMIRGGHMDLTMLGALEVAANGDLANFMIPGKLVKGPGGAMDLVSCGTRVVVTTTHCNKNGDPKIVERCRLPVTGKHCVCRIITEYAVFDVVDGRLVLKEIAEDTTVDQVKKLTGVGFDADNVITMPLAPLT

Source Source

Source organism organism	Trypanosoma brucei brucei TREU927
Common name common_name	Trypanosoma brucei brucei (strain 927/4 GUTat10.1)
NCBI taxonomy ID ncbi_taxonomy_id	185431
Host organism host_organism	Escherichia coli

Entity 2 Entity 2 non-polymer

Description description	ACETOACETIC ACID
Molecular weight formula_weight	102.1 kDa
Source method src_method	syn
Copy count entity_count	2

Entity 3 Entity 3 non-polymer

Description description	CALCIUM ION
Molecular weight formula_weight	40.1 kDa
Source method src_method	syn
Copy count entity_count	4

Entity 4 Entity 4 non-polymer

Description description	SUCCINYL-COENZYME A
Molecular weight formula_weight	867.6 kDa
Source method src_method	syn
Copy count entity_count	2

Entity 5 Entity 5 water

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	69

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Unit-cell length a length_a	60.222 Å
Unit-cell length b length_b	164.833 Å
Unit-cell length c length_c	189.395 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	90.00 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	16

Space group space_group	P 21 21 21
Space-group number int_tables_number	19
Crystal system crystal_system	—

Resolution resolution	2.600 Å
Low-resolution limit resolution_low	20.000 Å
R factor r_factor	0.2118
R_work r_work	0.2074
R_free r_free	0.2958

Crystal structure of ASCT D62N mutant from Trypanosoma brucei in complex with succinyl-CoA and acetylacetone.

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

Succinyl-CoA:3-ketoacid-coenzyme A transferase

State in the Current Structure

Other States of the Same Protein in the Database

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

9xmy__assembly_1__model_1

9xmy__assembly_1__model_1 | I(q)

9xmy__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (5)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 non-polymer

Entity 3 Entity 3 non-polymer

Entity 4 Entity 4 non-polymer

Entity 5 Entity 5 water

7. Citations (1)

Crystal structure of ASCT D62N mutant from Trypanosoma brucei in complex with succinyl-CoA and acetylacetone.

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

Succinyl-CoA:3-ketoacid-coenzyme A transferase

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

9xmy__assembly_1__model_1

9xmy__assembly_1__model_1 | I(q)

9xmy__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (5)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 non-polymer

Entity 3 Entity 3 non-polymer

Entity 4 Entity 4 non-polymer

Entity 5 Entity 5 water

7. Citations (1)