Download MendeleyStructure of the mixed-valence, active form, of cytochrome c peroxidase from obligate human pathogenic bacterium Neisseria gonorrhoeae
Carvalho, A.L., Romao, M.J., Pauleta, S., Nobrega, C.To be published.
6QKN
Structure of the azide-inhibited form of cytochrome c peroxidase from obligate human pathogenic bacterium Neisseria gonorrhoeae
- PDB DOI: https://doi.org/10.2210/pdb6QKN/pdb
- Classification: ELECTRON TRANSPORT
- Organism(s): Neisseria gonorrhoeae
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2019-01-29 Released: 2020-02-19
- Funding Organization(s): Fundacao para a Ciencia e a Tecnologia
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.30 Å
- R-Value Free: 0.215
- R-Value Work: 0.171
- R-Value Observed: 0.173
This is version 2.1 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 |
| Cytochrome-c peroxidase | 329 | Neisseria gonorrhoeae | Mutation(s): 0 Gene Names: ccpA, E8M64_00570, ERS135259_00627, NCTC13484_01765 EC: 1.11.1.5 |  | |
UniProt | |||||
Find proteins for Q5F5Z9 (Neisseria gonorrhoeae (strain ATCC 700825 / FA 1090)) Explore Q5F5Z9 Go to UniProtKB: Q5F5Z9 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q5F5Z9 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| HEC (Subject of Investigation/LOI) Query on HEC | C [auth A], D [auth A], G [auth B], H [auth B] | HEME C C34 H34 Fe N4 O4 HXQIYSLZKNYNMH-LJNAALQVSA-N |  | ||
| AZI Query on AZI | F [auth A], J [auth B] | AZIDE ION N3 IVRMZWNICZWHMI-UHFFFAOYSA-N |  | ||
| CA Query on CA | E [auth A], I [auth B] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.30 Å
- R-Value Free: 0.215
- R-Value Work: 0.171
- R-Value Observed: 0.173
- Space Group: P 21 21 21
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 79.12 | α = 90 |
| b = 89.14 | β = 90 |
| c = 94.83 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| PDB_EXTRACT | data extraction |
| MOSFLM | data reduction |
| Aimless | data scaling |
| PHASER | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2020-02-19 Deposition Author(s): Carvalho, A.L., Romao, M.J., Pauleta, S., Nobrega, C.
| Funding Organization | Location | Grant Number |
|---|---|---|
| Fundacao para a Ciencia e a Tecnologia | Portugal | RECI/BBB-BEP/0124/2012 |
| Fundacao para a Ciencia e a Tecnologia | Portugal | PTDC/BIA-BQM/29442/2017 |
Revision History (Full details and data files)
- Version 1.0: 2020-02-19
Type: Initial release - Version 2.0: 2022-07-20
Type: Coordinate replacement
Reason: Ligand geometry
Changes: Advisory, Atomic model, Author supporting evidence, Data collection, Database references, Derived calculations, Other, Refinement description, Structure summary - Version 2.1: 2024-01-24
Changes: Data collection, Refinement description
