Download MendeleyCrystal structure of tryptophanyl-tRNA synthetase from Yersinia pestis CO92
Nocek, B., Maltseva, N., Papazisi, L., Anderson, W., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)To be published.
3N9I
Crystal structure of tryptophanyl-tRNA synthetase from Yersinia pestis CO92
- PDB DOI: https://doi.org/10.2210/pdb3N9I/pdb
- Classification: LIGASE
- Organism(s): Yersinia pestis CO92
- Expression System: Cricetulus griseus
- Mutation(s): No
- Deposited: 2010-05-30 Released: 2010-07-21
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.95 ?
- R-Value Free: 0.206
- R-Value Work: 0.167
- R-Value Observed: 0.169
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
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Tryptophanyl-tRNA synthetase | 346 | Yersinia pestis CO92 | Mutation(s): 0 Gene Names: trpS, YPO0157, y3940, YP_0159 EC: 6.1.1.2 |  | |
UniProt | |||||
Find proteins for Q8ZJF2 (Yersinia pestis) Explore Q8ZJF2 Go to UniProtKB: Q8ZJF2 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q8ZJF2 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| GOL Query on GOL | C [auth A] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
| CA Query on CA | D [auth B] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.95 ?
- R-Value Free: 0.206
- R-Value Work: 0.167
- R-Value Observed: 0.169
- Space Group: P 21 21 21
- Diffraction Data: https://doi.org/10.18430/m33n9i
Unit Cell:
| Length ( ? ) | Angle ( ? ) |
|---|---|
| a = 61.099 | ¦Á = 90 |
| b = 78.15 | ¦Â = 90 |
| c = 152.176 | ¦Ă = 90 |
| Software Name | Purpose |
|---|---|
| SBC-Collect | data collection |
| PHASER | phasing |
| REFMAC | refinement |
| HKL-3000 | data reduction |
| HKL-3000 | data scaling |
Entry History
Deposition Data
- Released Date: 2010-07-21 Deposition Author(s): Nocek, B., Maltseva, N., Papazisi, L., Anderson, W., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)
Revision History (Full details and data files)
- Version 1.0: 2010-07-21
Type: Initial release - Version 1.1: 2011-07-13
Changes: Version format compliance - Version 1.2: 2014-10-01
Changes: Structure summary - Version 1.3: 2023-09-06
Changes: Data collection, Database references, Derived calculations, Refinement description
