Download MendeleyDerivatization of Proteinase K with Heavy Atoms Enhances Its Thermal Stability.
Yazawa, K., Sugahara, M., Yutani, K., Takehira, M., Numata, K.(2016) ACS Catal 6: 3036-3046
5AVJ
Crystal structure of proteinase K from Engyodontium album
- PDB DOI: https://doi.org/10.2210/pdb5AVJ/pdb
- Classification: HYDROLASE
- Organism(s): Parengyodontium album
- Mutation(s): No
- Deposited: 2015-06-17 Released: 2016-07-06
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.45 Å
- R-Value Free: 0.184
- R-Value Work: 0.163
- R-Value Observed: 0.164
wwPDB Validation 3D Report Full Report
This is version 1.1 of the entry. See complete history.
Literature
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Proteinase K | 279 | Parengyodontium album | Mutation(s): 0 EC: 3.4.21.64 |  | |
UniProt | |||||
Find proteins for P06873 (Parengyodontium album) Explore P06873 Go to UniProtKB: P06873 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P06873 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| GOL Query on GOL | F [auth A] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
| NO3 Query on NO3 | B [auth A], C [auth A], D [auth A], E [auth A] | NITRATE ION N O3 NHNBFGGVMKEFGY-UHFFFAOYSA-N |  | ||
| CA Query on CA | G [auth A], H [auth A] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.45 Å
- R-Value Free: 0.184
- R-Value Work: 0.163
- R-Value Observed: 0.164
- Space Group: P 43 21 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 67.549 | α = 90 |
| b = 67.549 | β = 90 |
| c = 107.083 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| HKL-2000 | data processing |
| HKL-2000 | data scaling |
| MOLREP | phasing |
Entry History
Deposition Data
- Released Date: 2016-07-06 Deposition Author(s): Sugahara, M., Numata, K.
Revision History (Full details and data files)
- Version 1.0: 2016-07-06
Type: Initial release - Version 1.1: 2024-11-13
Changes: Data collection, Database references, Derived calculations, Structure summary
