8I3Y

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

PDB DOI: https://doi.org/10.2210/pdb8I3Y/pdb

Classification: ELECTRON TRANSPORT
Organism(s): Trypanosoma brucei brucei TREU927
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2023-01-18 Released: 2024-01-31
Deposition Author(s): Mochizuki, K., Inaoka, D.K., Fukuda, K., Kurasawa, H., Iyoda, K., Nakai, U., Harada, S., Balogun, E.O., Mazet, M., Millerioux, Y., Bringaud, F., Boshart, M., Hirayama, K., Kita, K., Shiba, T.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free: 0.248
R-Value Work: 0.192
R-Value Observed: 0.194

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.0 of the entry. See complete history.

Literature

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

Mochizuki, K., Inaoka, D.K., Fukuda, K., Kurasawa, H., Iyoda, K., Nakai, U., Harada, S., Balogun, E.O., Mazet, M., Millerioux, Y., Bringaud, F., Boshart, M., Hirayama, K., Kita, K., Shiba, T.

To be published.

Macromolecule Content

Total Structure Weight: 208.7 kDa
Atom Count: 14,225
Modelled Residue Count: 1,864
Deposited Residue Count: 1,932
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Succinyl-CoA:3-ketoacid-coenzyme A transferase	A, B, C, D	483	Trypanosoma brucei brucei TREU927	Mutation(s): 0 Gene Names: Tb11.02.0290 EC: 2.8.3.5
UniProt
Find proteins for Q386P1 (Trypanosoma brucei brucei (strain 927/4 GUTat10.1)) Explore Q386P1 Go to UniProtKB: Q386P1
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q386P1
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SCA (Subject of Investigation/LOI) Query on SCA Download Ideal Coordinates CCD File SDF format, chain E [auth A] MOL2 format, chain E [auth A] mmCIF format, chain E [auth A]	E [auth A]	SUCCINYL-COENZYME A C₂₅ H₄₀ N₇ O₁₉ P₃ S VNOYUJKHFWYWIR-ITIYDSSPSA-N		Interactions Focus chain E [auth A] Interactions & Density Focus chain E [auth A]
SIN (Subject of Investigation/LOI) Query on SIN Download Ideal Coordinates CCD File SDF format, chain G [auth B] SDF format, chain J [auth D] MOL2 format, chain G [auth B] MOL2 format, chain J [auth D] mmCIF format, chain G [auth B] mmCIF format, chain J [auth D]	G [auth B], J [auth D]	SUCCINIC ACID C₄ H₆ O₄ KDYFGRWQOYBRFD-UHFFFAOYSA-N		Interactions Focus chain G [auth B] Focus chain J [auth D] Interactions & Density Focus chain G [auth B] Focus chain J [auth D]
CA (Subject of Investigation/LOI) Query on CA Download Ideal Coordinates CCD File SDF format, chain F [auth A] SDF format, chain H [auth B] SDF format, chain I [auth C] SDF format, chain K [auth D] MOL2 format, chain F [auth A] MOL2 format, chain H [auth B] MOL2 format, chain I [auth C] MOL2 format, chain K [auth D] mmCIF format, chain F [auth A] mmCIF format, chain H [auth B] mmCIF format, chain I [auth C] mmCIF format, chain K [auth D]	F [auth A], H [auth B], I [auth C], K [auth D]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain F [auth A] Focus chain H [auth B] Focus chain I [auth C] Focus chain K [auth D] Interactions & Density Focus chain F [auth A] Focus chain H [auth B] Focus chain I [auth C] Focus chain K [auth D]