Download MendeleyCrystal structure of the azide and iron substituted Clostrium difficile SOD2 complex
Li, W., Ying, T.L., Wang, C.L., Zhao, Y., Wang, H.F., Tan, X.S.To be published.
4JYY
Crystal structure of the azide and iron substituted Clostrium difficile SOD2 complex
- PDB DOI: https://doi.org/10.2210/pdb4JYY/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Clostridioides difficile 630
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2013-04-01 Released: 2014-04-02
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.10 Å
- R-Value Free: 0.198
- R-Value Work: 0.182
- R-Value Observed: 0.183
wwPDB Validation 3D Report Full Report
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 |
| Superoxide dismutase | 208 | Clostridioides difficile 630 | Mutation(s): 0 Gene Names: CD630_16310, sodA EC: 1.15.1.1 |  | |
UniProt | |||||
Find proteins for Q186I6 (Clostridioides difficile (strain 630)) Explore Q186I6 Go to UniProtKB: Q186I6 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q186I6 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| FE Query on FE | B [auth A] | FE (III) ION Fe VTLYFUHAOXGGBS-UHFFFAOYSA-N |  | ||
| AZI Query on AZI | C [auth A] | AZIDE ION N3 IVRMZWNICZWHMI-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.10 Å
- R-Value Free: 0.198
- R-Value Work: 0.182
- R-Value Observed: 0.183
- Space Group: P 65 2 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 80.375 | α = 90 |
| b = 80.375 | β = 90 |
| c = 250.532 | γ = 120 |
| Software Name | Purpose |
|---|---|
| ADSC | data collection |
| PHASES | phasing |
| PHENIX | refinement |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
Entry History
Deposition Data
- Released Date: 2014-04-02 Deposition Author(s): Li, W., Ying, T.L., Wang, C.L., Zhao, Y., Wang, H.F., Tan, X.S.
Revision History (Full details and data files)
- Version 1.0: 2014-04-02
Type: Initial release - Version 1.1: 2023-11-08
Changes: Data collection, Database references, Derived calculations, Refinement description
