Download MendeleyCrystal structure of Aspartyl-tRNA synthetase from Mycobacterium tuberculosis complexed with L-Aspartic Acid
Dranow, D.M., Lorimer, D.D., Edwards, T.E.To be published.
5W25
Crystal structure of Aspartyl-tRNA synthetase from Mycobacterium tuberculosis complexed with L-Aspartic Acid
- PDB DOI: https://doi.org/10.2210/pdb5W25/pdb
- Classification: LIGASE
- Organism(s): Mycobacterium tuberculosis H37Rv
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2017-06-05 Released: 2017-06-14
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.65 Å
- R-Value Free: 0.245
- R-Value Work: 0.225
- R-Value Observed: 0.226
wwPDB Validation 3D Report Full Report
This is version 1.2 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 |
| Aspartate--tRNA(Asp/Asn) ligase | 616 | Mycobacterium tuberculosis H37Rv | Mutation(s): 0 Gene Names: aspS, Rv2572c, MTCY227.29 EC: 6.1.1.23 |  | |
UniProt | |||||
Find proteins for P9WFW3 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore P9WFW3 Go to UniProtKB: P9WFW3 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P9WFW3 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| LYS Query on LYS | D [auth A], E [auth A], H [auth B] | LYSINE C6 H15 N2 O2 KDXKERNSBIXSRK-YFKPBYRVSA-O |  | ||
| GLU Query on GLU | F [auth A], I [auth B] | GLUTAMIC ACID C5 H9 N O4 WHUUTDBJXJRKMK-VKHMYHEASA-N |  | ||
| ASP Query on ASP | C [auth A], G [auth B] | ASPARTIC ACID C4 H7 N O4 CKLJMWTZIZZHCS-REOHCLBHSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.65 Å
- R-Value Free: 0.245
- R-Value Work: 0.225
- R-Value Observed: 0.226
- Space Group: P 1 21 1
- Diffraction Data: https://doi.org/10.18430/M35W25
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 64.72 | α = 90 |
| b = 158.24 | β = 93.77 |
| c = 75.74 | γ = 90 |
| Software Name | Purpose |
|---|---|
| XSCALE | data scaling |
| PHENIX | refinement |
| PDB_EXTRACT | data extraction |
| XDS | data reduction |
| MoRDa | phasing |
Entry History
Deposition Data
- Released Date: 2017-06-14 Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)
Revision History (Full details and data files)
- Version 1.0: 2017-06-14
Type: Initial release - Version 1.1: 2023-10-04
Changes: Data collection, Database references, Refinement description - Version 1.2: 2024-03-13
Changes: Source and taxonomy
