Download MendeleyUniversal Serial electron diffraction for high quality protein structures
Hofer, G., Wang, L., Pacoste, L., Hager, P., Fonjallaz, A., Williams, L., Worrall, J., Steiner, R., Xu, H., Zou, X.To be published.
9FYH | pdb_00009fyh
Dye Type Peroxidase Aa from Streptomyces lividans by microcrystal electron diffraction (MicroED/3D ED)
- PDB DOI: https://doi.org/10.2210/pdb9FYH/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Streptomyces lividans
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2024-07-03 Released: 2025-07-16
- Funding Organization(s): Knut and Alice Wallenberg Foundation, Swedish Research Council
Experimental Data Snapshot
- Method: ELECTRON CRYSTALLOGRAPHY
- Resolution: 2.40 Å
- R-Value Free: 0.256 (Depositor), 0.274 (DCC)
- R-Value Work: 0.202 (Depositor), 0.224 (DCC)
- R-Value Observed: 0.205 (Depositor)
Starting Model: experimental
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wwPDB Validation 3D Report Full Report
This is version 1.0 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 |
| Deferrochelatase | 373 | Streptomyces lividans | Mutation(s): 0 Gene Names: SLI_2602 EC: 1.11.1 |  | |
UniProt | |||||
Find proteins for A0A7U9DT46 (Streptomyces lividans 1326) Explore A0A7U9DT46 Go to UniProtKB: A0A7U9DT46 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A0A7U9DT46 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| HEM (Subject of Investigation/LOI) Query on HEM | C [auth A], D [auth B] | PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L |  | ||
Experimental Data & Validation
Experimental Data
- Method: ELECTRON CRYSTALLOGRAPHY
- Resolution: 2.40 Å
- R-Value Free: 0.256 (Depositor), 0.274 (DCC)
- R-Value Work: 0.202 (Depositor), 0.224 (DCC)
- R-Value Observed: 0.205 (Depositor)
Space Group: P 1 21 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 72.77 | α = 90 |
| b = 67.4 | β = 105.8 |
| c = 73.63 | γ = 90 |
| Task | Software Package | Version |
|---|---|---|
| RECONSTRUCTION | PHENIX | |
| MODEL REFINEMENT | PHENIX |
Entry History & Funding Information
Deposition Data
- Released Date: 2025-07-16 Deposition Author(s): Hofer, G., Wang, L., Pacoste, L., Hager, P., Finjallaz, A., Williams, L., Worral, J., Steiner, R., Xu, H., Zou, X.
| Funding Organization | Location | Grant Number |
|---|---|---|
| Knut and Alice Wallenberg Foundation | Sweden | -- |
| Swedish Research Council | Sweden | -- |
Revision History (Full details and data files)
- Version 1.0: 2025-07-16
Type: Initial release
