Download MendeleyCrystal structure of Tryptophanyl-tRNA synthetase from Bacillus stearothermophilus in complex with O5E6 and ATP
Lv, G., Fan, S., Feng, X., Zhang, Q., Wu, G., Jin, Y., Yang, Z.To be published.
7EER
Crystal structure of Tryptophanyl-tRNA synthetase from Bacillus stearothermophilus in complex with 05E6 and ATP
- PDB DOI: https://doi.org/10.2210/pdb7EER/pdb
- Classification: LIGASE
- Organism(s): Geobacillus stearothermophilus
- Expression System: Escherichia coli
- Mutation(s): Yes
- Deposited: 2021-03-19 Released: 2022-05-25
- Funding Organization(s): National Natural Science Foundation of China (NSFC), Ministry of Science and Technology (MoST, China)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.255
- R-Value Work: 0.223
- R-Value Observed: 0.224
This is version 1.1 of the entry. See complete history.
Literature
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Tryptophan--tRNA ligase | 330 | Geobacillus stearothermophilus | Mutation(s): 1 Gene Names: trpS EC: 6.1.1.2 |  | |
UniProt | |||||
Find proteins for P00953 (Geobacillus stearothermophilus) Explore P00953 Go to UniProtKB: P00953 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P00953 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| ATP Query on ATP | E [auth A], G [auth B], I [auth C], K [auth D] | ADENOSINE-5'-TRIPHOSPHATE C10 H16 N5 O13 P3 ZKHQWZAMYRWXGA-KQYNXXCUSA-N |  | ||
| ZCW (Subject of Investigation/LOI) Query on ZCW | F [auth A], H [auth B], J [auth C], L [auth D] | 2-(1H-indol-3-yl)ethanol C10 H11 N O MBBOMCVGYCRMEA-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.00 Å
- R-Value Free: 0.255
- R-Value Work: 0.223
- R-Value Observed: 0.224
- Space Group: C 1 2 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 87.627 | α = 90 |
| b = 87.595 | β = 90 |
| c = 217.084 | γ = 90 |
| Software Name | Purpose |
|---|---|
| HKL-2000 | data scaling |
| PHENIX | refinement |
| PDB_EXTRACT | data extraction |
| HKL-2000 | data reduction |
| PHENIX | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2022-05-25 Deposition Author(s): Lv, G., Fan, S., Feng, X., Zhang, Q., Wu, G., Jin, Y., Yang, Z.
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Natural Science Foundation of China (NSFC) | China | 81761128016 |
| National Natural Science Foundation of China (NSFC) | China | 81621064 |
| Ministry of Science and Technology (MoST, China) | China | 2018YFA0901800 |
Revision History (Full details and data files)
- Version 1.0: 2022-05-25
Type: Initial release - Version 1.1: 2023-11-29
Changes: Data collection, Refinement description
