3RP9 | pdb_00003rp9

Crystal Structure of the apo MapK from Toxoplasma Gondii, 25.m01780 or TGME49_007820

PDB DOI: https://doi.org/10.2210/pdb3RP9/pdb

Classification: TRANSFERASE
Organism(s): Toxoplasma gondii ME49
Expression System: Escherichia coli BL21
Mutation(s): No

Deposited: 2011-04-26 Released: 2011-06-15
Deposition Author(s): Wernimont, A.K., Crombet, L., Pizarro, J.C., Crowther, G.J., Van Voorhis, W.C., Arrowsmith, C.H., Bountra, C., Weigelt, J., Edwards, A.M., Hui, R., Lin, Y.H., Structural Genomics Consortium (SGC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free:
0.237 (Depositor), 0.236 (DCC)
R-Value Work:
0.201 (Depositor), 0.201 (DCC)
R-Value Observed:
0.203 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

This is version 1.3 of the entry. See complete history.

Literature

Crystal Structure of the apo MapK from Toxoplasma Gondii, 25.m01780 or TGME49_007820

Wernimont, A.K., Crombet, L., Pizarro, J.C., Crowther, G.J., Van Voorhis, W.C., Arrowsmith, C.H., Bountra, C., Weigelt, J., Edwards, A.M., Hui, R., Lin, Y.H.

To be published.

Macromolecule Content

Total Structure Weight: 52.83 kDa
Atom Count: 2,936
Modeled Residue Count: 350
Deposited Residue Count: 458
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitogen-activated protein kinase	A	458	Toxoplasma gondii ME49	Mutation(s): 0 Gene Names: 25.m01780, TGME49_007820 EC: 2.7.11.24
UniProt
Find proteins for B6KP12 (Toxoplasma gondii (strain ATCC 50861 / VEG)) Explore B6KP12 Go to UniProtKB: B6KP12
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	B6KP12
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free: 0.237 (Depositor), 0.236 (DCC)
R-Value Work: 0.201 (Depositor), 0.201 (DCC)
R-Value Observed: 0.203 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 46.508	α = 90
b = 97.454	β = 104.92
c = 48.374	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

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Entry History

Deposition Data

Released Date: 2011-06-15

Deposition Author(s):

Structural Genomics Consortium (SGC)

Revision History (Full details and data files)

Version 1.0: 2011-06-15
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2017-11-08
Changes: Refinement description
Version 1.3: 2023-09-13
Changes: Data collection, Database references, Derived calculations, Refinement description