4XLL | pdb_00004xll

Toxoplasma gondii DJ-1, oxidized

PDB DOI: https://doi.org/10.2210/pdb4XLL/pdb

Classification: UNKNOWN FUNCTION
Organism(s): Toxoplasma gondii
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2015-01-13 Released: 2015-02-11
Deposition Author(s): Child, M.A., Wilson, M.A., Reese, M.L., Bogyo, M.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.08 Å
R-Value Free:
0.219 (Depositor), 0.224 (DCC)
R-Value Work:
0.169 (Depositor), 0.180 (DCC)
R-Value Observed:
0.174 (Depositor)

wwPDB Validation 3D Report Full Report

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This is version 1.2 of the entry. See complete history.

Literature

Toxoplasma DJ-1 regulates microneme exocytosis through an association with the plant-like kinase, CDPK1

Child, M.A., Garland, M., Madzelan, P., Treeck, M., van der Linden, W., Oresic, K., Weerapana, E., Wilson, M.A., Boothroyd, J.C., Reese, M.L., Bogyo, M.

To be published.

Macromolecule Content

Total Structure Weight: 40.17 kDa
Atom Count: 2,990
Modeled Residue Count: 368
Deposited Residue Count: 376
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DJ-1 family protein	A, B	188	Toxoplasma gondii	Mutation(s): 0 Gene Names: TGVEG_214290
UniProt
Find proteins for B9PZH8 (Toxoplasma gondii (strain ATCC 50861 / VEG)) Explore B9PZH8 Go to UniProtKB: B9PZH8
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	B9PZH8
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CSD Query on CSD	A, B	L-PEPTIDE LINKING	C₃ H₇ N O₄ S		CYS

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.08 Å
R-Value Free: 0.219 (Depositor), 0.224 (DCC)
R-Value Work: 0.169 (Depositor), 0.180 (DCC)
R-Value Observed: 0.174 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 38.777	α = 90
b = 55.181	β = 93.92
c = 75.247	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2015-02-11

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2015-02-11
Type: Initial release
Version 1.1: 2016-07-27
Changes: Data collection
Version 1.2: 2024-10-16
Changes: Data collection, Database references, Derived calculations, Refinement description, Structure summary