Download MendeleyDeterminants of pKa values of internal ionizable groups: properties of ion pairs in the protein core
Robinson, A.C., Schlessman, J.L., Heroux, A., Garcia-Moreno E., B., Castaneda, C.A.To be published.
3QOJ
Cryogenic structure of Staphylococcal nuclease variant D+PHS/V23K
- PDB DOI: https://doi.org/10.2210/pdb3QOJ/pdb
- Classification: HYDROLASE
- Organism(s): Staphylococcus aureus
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): Yes
- Deposited: 2011-02-10 Released: 2011-03-16
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.60 Å
- R-Value Free: 0.228
- R-Value Work: 0.187
- R-Value Observed: 0.189
Starting Model: experimental
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This is version 1.2 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 |
| Thermonuclease | 143 | Staphylococcus aureus | Mutation(s): 6 Gene Names: nuc EC: 3.1.31.1 |  | |
UniProt | |||||
Find proteins for Q8NXI6 (Staphylococcus aureus (strain MW2)) Explore Q8NXI6 Go to UniProtKB: Q8NXI6 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q8NXI6 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| THP Query on THP | C [auth A] | THYMIDINE-3',5'-DIPHOSPHATE C10 H16 N2 O11 P2 CSNCBOPUCJOHLS-XLPZGREQSA-N |  | ||
| CA Query on CA | B [auth A] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.60 Å
- R-Value Free: 0.228
- R-Value Work: 0.187
- R-Value Observed: 0.189
- Space Group: P 1 21 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 31.138 | α = 90 |
| b = 60.351 | β = 93.86 |
| c = 38.156 | γ = 90 |
| Software Name | Purpose |
|---|---|
| CBASS | data collection |
| PHASER | phasing |
| REFMAC | refinement |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
Entry History
Deposition Data
- Released Date: 2011-03-16 Deposition Author(s): Robinson, A.C., Schlessman, J.L., Heroux, A., Garcia-Moreno E., B.
Revision History (Full details and data files)
- Version 1.0: 2011-03-16
Type: Initial release - Version 1.1: 2011-07-13
Changes: Version format compliance - Version 1.2: 2023-09-13
Changes: Data collection, Database references, Derived calculations, Refinement description
