8R3Q

Transketolase from Plasmodium falciparum in complex with thiamin pyrophosphate

PDB DOI: https://doi.org/10.2210/pdb8R3Q/pdb

Classification: CYTOSOLIC PROTEIN
Organism(s): Plasmodium falciparum
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2023-11-10 Released: 2024-05-22
Deposition Author(s): Ballut, L., Georges, R.N., Aghajari, N., Hecquet, L., Charmantray, F., Doumeche, B.
Funding Organization(s): Other government

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.88 Å
R-Value Free: 0.168
R-Value Work: 0.144
R-Value Observed: 0.145

Starting Model: in silico
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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

Are Transketolases relevant Targets fighting Human Pathogens? A comparative Biochemical, Bioinformatic and Structural Study

Georges, R.N., Ballut, L., Aghajari, N., Hecquet, L., Charmantray, F., Doumeche, B.

To be published.

Macromolecule Content

Total Structure Weight: 314.21 kDa
Atom Count: 24,764
Modelled Residue Count: 2,691
Deposited Residue Count: 2,748
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
transketolase	A [auth B], B [auth A], C, D	687	Plasmodium falciparum	Mutation(s): 0 Gene Names: PF3D7_0610800 EC: 2.2.1.1
UniProt
Find proteins for C6KSV3 (Plasmodium falciparum (isolate 3D7)) Explore C6KSV3 Go to UniProtKB: C6KSV3
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	C6KSV3
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
TPP Query on TPP Download Ideal Coordinates CCD File SDF format, chain E [auth B] SDF format, chain J [auth A] SDF format, chain N [auth C] SDF format, chain R [auth D] MOL2 format, chain E [auth B] MOL2 format, chain J [auth A] MOL2 format, chain N [auth C] MOL2 format, chain R [auth D] mmCIF format, chain E [auth B] mmCIF format, chain J [auth A] mmCIF format, chain N [auth C] mmCIF format, chain R [auth D]	E [auth B], J [auth A], N [auth C], R [auth D]	THIAMINE DIPHOSPHATE C₁₂ H₁₉ N₄ O₇ P₂ S AYEKOFBPNLCAJY-UHFFFAOYSA-O		Interactions Focus chain E [auth B] Focus chain J [auth A] Focus chain N [auth C] Focus chain R [auth D] Interactions & Density Focus chain E [auth B] Focus chain J [auth A] Focus chain N [auth C] Focus chain R [auth D]
CIT Query on CIT Download Ideal Coordinates CCD File SDF format, chain F [auth B] SDF format, chain K [auth A] SDF format, chain O [auth C] SDF format, chain S [auth D] MOL2 format, chain F [auth B] MOL2 format, chain K [auth A] MOL2 format, chain O [auth C] MOL2 format, chain S [auth D] mmCIF format, chain F [auth B] mmCIF format, chain K [auth A] mmCIF format, chain O [auth C] mmCIF format, chain S [auth D]	F [auth B], K [auth A], O [auth C], S [auth D]	CITRIC ACID C₆ H₈ O₇ KRKNYBCHXYNGOX-UHFFFAOYSA-N		Interactions Focus chain F [auth B] Focus chain K [auth A] Focus chain O [auth C] Focus chain S [auth D] Interactions & Density Focus chain F [auth B] Focus chain K [auth A] Focus chain O [auth C] Focus chain S [auth D]
EDO Query on EDO Download Ideal Coordinates CCD File SDF format, chain G [auth B] SDF format, chain I [auth A] SDF format, chain L [auth A] SDF format, chain P [auth C] SDF format, chain T [auth D] MOL2 format, chain G [auth B] MOL2 format, chain I [auth A] MOL2 format, chain L [auth A] MOL2 format, chain P [auth C] MOL2 format, chain T [auth D] mmCIF format, chain G [auth B] mmCIF format, chain I [auth A] mmCIF format, chain L [auth A] mmCIF format, chain P [auth C] mmCIF format, chain T [auth D]	G [auth B], I [auth A], L [auth A], P [auth C], T [auth D]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain G [auth B] Focus chain I [auth A] Focus chain L [auth A] Focus chain P [auth C] Focus chain T [auth D] Interactions & Density Focus chain G [auth B] Focus chain I [auth A] Focus chain L [auth A] Focus chain P [auth C] Focus chain T [auth D]
MG Query on MG Download Ideal Coordinates CCD File SDF format, chain H [auth B] SDF format, chain M [auth A] SDF format, chain Q [auth C] SDF format, chain U [auth D] MOL2 format, chain H [auth B] MOL2 format, chain M [auth A] MOL2 format, chain Q [auth C] MOL2 format, chain U [auth D] mmCIF format, chain H [auth B] mmCIF format, chain M [auth A] mmCIF format, chain Q [auth C] mmCIF format, chain U [auth D]	H [auth B], M [auth A], Q [auth C], U [auth D]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain H [auth B] Focus chain M [auth A] Focus chain Q [auth C] Focus chain U [auth D] Interactions & Density Focus chain H [auth B] Focus chain M [auth A] Focus chain Q [auth C] Focus chain U [auth D]