Download MendeleyActivation of redox tyrosine switch is required for ligand binding at the catalytic site in heme-cu nitrite reductases
Dong, J., Sasaki, D., Eady, R., Antonyuk, S.V., Hasnain, S.S.To be published.
5OBO
Crystal structure of nitrite bound D97N mutant of three-domain heme-Cu nitrite reductase from Ralstonia pickettii
- PDB DOI: https://doi.org/10.2210/pdb5OBO/pdb
- Classification: ELECTRON TRANSPORT
- Organism(s): Ralstonia sp. 5_2_56FAA
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): Yes
- Deposited: 2017-06-28 Released: 2018-08-01
- Funding Organization(s): Biotechnology and Biological Sciences Research Council
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.89 Å
- R-Value Free: 0.175
- R-Value Work: 0.147
- R-Value Observed: 0.148
Starting Model: experimental
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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 |
| Nitrite reductase, copper-containing | 468 | Ralstonia sp. 5_2_56FAA | Mutation(s): 1 Gene Names: HMPREF0989_00586 EC: 1.7.2.1 |  | |
UniProt | |||||
Find proteins for U3G913 (Ralstonia sp. 5_2_56FAA) Explore U3G913 Go to UniProtKB: U3G913 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | U3G913 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 4 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| HEC Query on HEC | D [auth A] | HEME C C34 H34 Fe N4 O4 HXQIYSLZKNYNMH-LJNAALQVSA-N |  | ||
| GOL Query on GOL | E [auth A], F [auth A] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
| CU Query on CU | B [auth A], C [auth A] | COPPER (II) ION Cu JPVYNHNXODAKFH-UHFFFAOYSA-N |  | ||
| NO2 Query on NO2 | G [auth A] | NITRITE ION N O2 IOVCWXUNBOPUCH-UHFFFAOYSA-M |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.89 Å
- R-Value Free: 0.175
- R-Value Work: 0.147
- R-Value Observed: 0.148
- Space Group: I 21 3
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 180.69 | α = 90 |
| b = 180.69 | β = 90 |
| c = 180.69 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| iMOSFLM | data reduction |
| SCALA | data scaling |
| MOLREP | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2018-08-01 Deposition Author(s): Dong, J., Sasaki, D., Eady, R., Antonyuk, S.V., Hasnain, S.S.
| Funding Organization | Location | Grant Number |
|---|---|---|
| Biotechnology and Biological Sciences Research Council | United Kingdom | BB/L006960/1 |
Revision History (Full details and data files)
- Version 1.0: 2018-08-01
Type: Initial release - Version 1.1: 2024-01-17
Changes: Advisory, Data collection, Database references, Derived calculations, Refinement description
