Download MendeleyEfeb, the Peroxidase Component of the Efeuob Bacterial Fe(II) Transport System, Also Shows Novel Removal of Iron from Heme
Bamford, V.A., Andrews, S.C., Watson, K.A.To be published.
2Y4F
X-ray crystallographic structure of E. coli heme-EfeB
- PDB DOI: 10.2210/pdb2Y4F/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Escherichia coli K-12
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2011-01-05 Released: 2011-01-26
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.70 Å
- R-Value Free: 0.284
- R-Value Work: 0.193
- R-Value Observed: 0.198
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 |
| PEROXIDASE YCDB | A, B | 392 | Escherichia coli K-12 | Mutation(s): 0 Gene Names: efeB, ycdB, b1019, JW1004 EC: 1.11.1 (PDB Primary Data), 4.99.1.1 (UniProt) |  |
UniProt | |||||
Find proteins for P31545 (Escherichia coli (strain K12)) Explore P31545 Go to UniProtKB: P31545 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P31545 | ||||
Protein Feature ViewExpand | |||||
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Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| HEM Query on HEM | C [auth A], L [auth B] | PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L |  | Ligand Interaction | |
| SO4 Query on SO4 | D [auth A], E [auth A], F [auth A], G [auth A], H [auth A], | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | Ligand Interaction | |
| GOL Query on GOL | K [auth A] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | Ligand Interaction | |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.70 Å
- R-Value Free: 0.284
- R-Value Work: 0.193
- R-Value Observed: 0.198
- Space Group: P 21 21 21
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 83.33 | α = 90 |
| b = 85.93 | β = 90 |
| c = 120 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| MOSFLM | data reduction |
| SCALA | data scaling |
| PHASER | phasing |
Entry History
Deposition Data
- Released Date: 2011-01-26 Deposition Author(s): Bamford, V.A., Andrews, S.C., Watson, K.A.
Revision History (Full details and data files)
- Version 1.0: 2011-01-26
Type: Initial release - Version 1.1: 2011-05-08
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Version format compliance - Version 1.3: 2019-05-22
Changes: Data collection, Experimental preparation, Other
