Download MendeleyCrystal Structure of Glycine--tRNA ligase from Mycobacterium tuberculosis (AMP-Mg bound)
Seibold, S., Lovell, S., Battaile, K.P., DeRocher, A.To be published.
8T5N
Crystal Structure of Glycine--tRNA ligase from Mycobacterium tuberculosis (AMP-Mg bound)
- PDB DOI: https://doi.org/10.2210/pdb8T5N/pdb
- Classification: LIGASE
- Organism(s): Mycobacterium tuberculosis
- Expression System: Mycolicibacterium smegmatis MC2 155
- Mutation(s): No
- Deposited: 2023-06-14 Released: 2023-06-28
- Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID), National Institutes of Health/Office of the Director
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.65 Å
- R-Value Free: 0.171
- R-Value Work: 0.156
- R-Value Observed: 0.157
Starting Model: experimental
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This is version 1.1 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 |
| Glycine--tRNA ligase | 476 | Mycobacterium tuberculosis | Mutation(s): 0 Gene Names: glyQS, glyS, Rv2357c, MTCY27.23, MTCY98.26 EC: 6.1.1.14 |  | |
UniProt | |||||
Find proteins for P9WFV7 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore P9WFV7 Go to UniProtKB: P9WFV7 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P9WFV7 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 6 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| AMP (Subject of Investigation/LOI) Query on AMP | M [auth A] | ADENOSINE MONOPHOSPHATE C10 H14 N5 O7 P UDMBCSSLTHHNCD-KQYNXXCUSA-N |  | ||
| GOL Query on GOL | G [auth A] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
| IMD Query on IMD | H [auth A], I [auth A], J [auth A], K [auth A], L [auth A] | IMIDAZOLE C3 H5 N2 RAXXELZNTBOGNW-UHFFFAOYSA-O |  | ||
| EDO Query on EDO | E [auth A], F [auth A] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | ||
| CA Query on CA | D [auth A] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |  | ||
| MG (Subject of Investigation/LOI) Query on MG | B [auth A], C [auth A] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.65 Å
- R-Value Free: 0.171
- R-Value Work: 0.156
- R-Value Observed: 0.157
- Space Group: P 61 2 2
- Diffraction Data: https://doi.org/10.18430/m38t5n
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 126.355 | α = 90 |
| b = 126.355 | β = 90 |
| c = 129.027 | γ = 120 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| XDS | data reduction |
| PHASER | phasing |
| Aimless | data scaling |
Entry History & Funding Information
Deposition Data
- Released Date: 2023-06-28 Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID) | United States | HHSN272201700059C |
| National Institutes of Health/Office of the Director | United States | S10OD030394 |
Revision History (Full details and data files)
- Version 1.0: 2023-06-28
Type: Initial release - Version 1.1: 2024-04-03
Changes: Data collection, Source and taxonomy
