Download MendeleyCrystal structure of Cysteine-tRNA ligase from Elizabethkingia sp.
Abendroth, J., Dranow, D.M., Lorimer, D.D., Horanyi, P.S., Edwards, T.E.To be published.
6UJD
Crystal structure of Cysteine-tRNA ligase from Elizabethkingia sp.
- PDB DOI: https://doi.org/10.2210/pdb6UJD/pdb
- Classification: LIGASE
- Organism(s): Elizabethkingia sp.
- Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
- Mutation(s): Yes
- Deposited: 2019-10-02 Released: 2019-10-16
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.60 Å
- R-Value Free: 0.217
- R-Value Work: 0.175
- R-Value Observed: 0.180
wwPDB Validation 3D Report Full Report
Currently 6UJD does not have a validation slider image.
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 |
| Cysteine--tRNA ligase | 494 | Elizabethkingia sp. | Mutation(s): 1 Gene Names: cysS, BMF97_00660 EC: 6.1.1.16 |  | |
UniProt | |||||
Find proteins for A0A1T3F4R2 (Elizabethkingia meningoseptica) Explore A0A1T3F4R2 Go to UniProtKB: A0A1T3F4R2 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A0A1T3F4R2 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 5 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| PG5 Query on PG5 | G [auth A] | 1-METHOXY-2-[2-(2-METHOXY-ETHOXY]-ETHANE C8 H18 O4 YFNKIDBQEZZDLK-UHFFFAOYSA-N |  | ||
| PO4 Query on PO4 | F [auth A] | PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K |  | ||
| ZN Query on ZN | B [auth A] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |  | ||
| EDO Query on EDO | H [auth A] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | ||
| CL Query on CL | C [auth A], D [auth A], E [auth A] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.60 Å
- R-Value Free: 0.217
- R-Value Work: 0.175
- R-Value Observed: 0.180
- Space Group: P 41 21 2
- Diffraction Data: https://doi.org/10.18430/m36ujd
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 78.26 | α = 90 |
| b = 78.26 | β = 90 |
| c = 208.9 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| XDS | data reduction |
| XSCALE | data scaling |
| PDB_EXTRACT | data extraction |
| MoRDa | phasing |
| PHENIX | model building |
| Coot | model building |
Structure Validation
Currently 6UJD does not have a validation slider image.
Entry History
Deposition Data
- Released Date: 2019-10-16 Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)
Revision History (Full details and data files)
- Version 1.0: 2019-10-16
Type: Initial release - Version 1.1: 2020-02-12
Changes: Database references - Version 1.2: 2023-10-11
Changes: Data collection, Database references, Refinement description
