Download MendeleyMultiple sulfane modifications in active-site cysteine thiols of two sulfur oxygenase reductases and analysis of substrate/product channels
Frazao, C., Klezin, A.To be published.
6QKM
Diallyl trisulfide inhibited sulfur oxygenase reductase
- PDB DOI: https://doi.org/10.2210/pdb6QKM/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Acidianus ambivalens
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2019-01-29 Released: 2020-02-19
- Funding Organization(s): Foundation for Science and Technology, German Research Foundation
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.10 Å
- R-Value Free: 0.212
- R-Value Work: 0.164
- R-Value Observed: 0.165
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 |
| Sulfur oxygenase/reductase | 318 | Acidianus ambivalens | Mutation(s): 0 Gene Names: sor EC: 1.13.11.55 |  | |
UniProt | |||||
Find proteins for P29082 (Acidianus ambivalens) Explore P29082 Go to UniProtKB: P29082 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P29082 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Sulfur oxygenase/reductase | 318 | Acidianus ambivalens | Mutation(s): 0 Gene Names: sor EC: 1.13.11.55 |  | |
UniProt | |||||
Find proteins for P29082 (Acidianus ambivalens) Explore P29082 Go to UniProtKB: P29082 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P29082 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| FE (Subject of Investigation/LOI) Query on FE | G [auth A] H [auth B] I [auth C] J [auth D] K [auth E] | FE (III) ION Fe VTLYFUHAOXGGBS-UHFFFAOYSA-N |  | ||
| Modified Residues 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| CSS Query on CSS | A, D | L-PEPTIDE LINKING | C3 H7 N O2 S2 |  | CYS |
| TSY Query on TSY | A, D | L-PEPTIDE LINKING | C3 H7 N O2 S3 |  | CYS |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.10 Å
- R-Value Free: 0.212
- R-Value Work: 0.164
- R-Value Observed: 0.165
- Space Group: I 4
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 162.012 | α = 90 |
| b = 162.012 | β = 90 |
| c = 153.86 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| XDS | data reduction |
| XDS | data scaling |
| PHENIX | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2020-02-19 Deposition Author(s): Frazao, C., Klezin, A., Poell, U.
| Funding Organization | Location | Grant Number |
|---|---|---|
| Foundation for Science and Technology | Portugal | LIOA-01-0145-FEDER-007660 |
| German Research Foundation | Germany | Kl885-7/1 |
Revision History (Full details and data files)
- Version 1.0: 2020-02-19
Type: Initial release - Version 1.1: 2024-01-24
Changes: Data collection, Database references, Derived calculations, Refinement description
