Download MendeleyCrystal structure of the apo form of the glutaminyl-tRNA synthetase catalytic domain from Toxoplasma gondii.
van Rooyen, J.M., Belrhali, H., Hakimi, M.A.To be published.
4P2B | pdb_00004p2b
Crystal structure of the apo form of the glutaminyl-tRNA synthetase catalytic domain from Toxoplasma gondii.
- PDB DOI: https://doi.org/10.2210/pdb4P2B/pdb
- Classification: LIGASE
- Organism(s): Toxoplasma gondii
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2014-03-03 Released: 2015-03-18
- Funding Organization(s): French National Research Agency, Laboratoire d'Excellence ParaFrap, Fondation Innovations en Infectiologie, Outstanding Scientist Research Programme of the Department of Biotechnology
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.80 Å
- R-Value Free: 0.256 (Depositor), 0.260 (DCC)
- R-Value Work: 0.225 (Depositor), 0.230 (DCC)
- R-Value Observed: 0.227 (Depositor)
Starting Model: experimental
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wwPDB Validation 3D Report Full Report
This is version 1.4 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Glutamine aminoacyl-tRNA synthetase | 576 | Toxoplasma gondii | Mutation(s): 0 EC: 6.1.1.18 |  | |
UniProt | |||||
Find proteins for B6KTZ0 (Toxoplasma gondii (strain ATCC 50861 / VEG)) Explore B6KTZ0 Go to UniProtKB: B6KTZ0 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | B6KTZ0 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| SO4 Query on SO4 | B [auth A], C [auth A] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.80 Å
- R-Value Free: 0.256 (Depositor), 0.260 (DCC)
- R-Value Work: 0.225 (Depositor), 0.230 (DCC)
- R-Value Observed: 0.227 (Depositor)
Space Group: P 32 2 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 105.13 | α = 90 |
| b = 105.13 | β = 90 |
| c = 229.53 | γ = 120 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
Entry History & Funding Information
Deposition Data
- Released Date: 2015-03-18 Deposition Author(s): van Rooyen, J.M., Belrhali, H., Hakimi, M.A.
| Funding Organization | Location | Grant Number |
|---|---|---|
| French National Research Agency | France | ANR-12-BSV3-0009-01 |
| Laboratoire d'Excellence ParaFrap | France | ANR-11-LABX-0024 |
| Fondation Innovations en Infectiologie | France | -- |
| Outstanding Scientist Research Programme of the Department of Biotechnology | India | -- |
Revision History (Full details and data files)
- Version 1.0: 2015-03-18
Type: Initial release - Version 1.1: 2015-10-07
Changes: Experimental preparation - Version 1.2: 2017-10-04
Changes: Author supporting evidence, Derived calculations - Version 1.3: 2023-09-27
Changes: Data collection, Database references, Refinement description - Version 1.4: 2024-11-20
Changes: Structure summary
