[English] 日本語
Yorodumi- PDB-1stn: THE CRYSTAL STRUCTURE OF STAPHYLOCOCCAL NUCLEASE REFINED AT 1.7 A... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1stn | ||||||
---|---|---|---|---|---|---|---|
Title | THE CRYSTAL STRUCTURE OF STAPHYLOCOCCAL NUCLEASE REFINED AT 1.7 ANGSTROMS RESOLUTION | ||||||
Components | STAPHYLOCOCCAL NUCLEASE | ||||||
Keywords | HYDROLASE(PHOSPHORIC DIESTER) | ||||||
Function / homology | Function and homology information endonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 3'-phosphomonoesters / micrococcal nuclease / nucleic acid binding / extracellular region / membrane / metal ion binding Similarity search - Function | ||||||
Biological species | Staphylococcus aureus (bacteria) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 1.7 Å | ||||||
Authors | Hynes, T.R. / Fox, R.O. | ||||||
Citation | Journal: Proteins / Year: 1991 Title: The crystal structure of staphylococcal nuclease refined at 1.7 A resolution. Authors: Hynes, T.R. / Fox, R.O. #1: Journal: Nature / Year: 1989 Title: Transfer of a Beta-Turn Structure to a New Protein Context Authors: Hynes, T.R. / Kautz, R.A. / Goodman, M.A. / Gill, J.F. / Fox, R.O. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 1stn.cif.gz | 39.7 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb1stn.ent.gz | 27.5 KB | Display | PDB format |
PDBx/mmJSON format | 1stn.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1stn_validation.pdf.gz | 361.8 KB | Display | wwPDB validaton report |
---|---|---|---|---|
Full document | 1stn_full_validation.pdf.gz | 361.8 KB | Display | |
Data in XML | 1stn_validation.xml.gz | 4.1 KB | Display | |
Data in CIF | 1stn_validation.cif.gz | 6.3 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/st/1stn ftp://data.pdbj.org/pub/pdb/validation_reports/st/1stn | HTTPS FTP |
-Related structure data
Similar structure data |
---|
-Links
-Assembly
Deposited unit |
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
| ||||||||
Atom site foot note | 1: CIS PROLINE - PRO 117 |
-Components
#1: Protein | Mass: 16843.330 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Staphylococcus aureus (bacteria) / References: UniProt: P00644, micrococcal nuclease |
---|---|
#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
---|
-Sample preparation
Crystal | Density Matthews: 2.22 Å3/Da / Density % sol: 44.5 % | ||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Crystal grow | *PLUS Temperature: 25 ℃ / pH: 8.15 / Method: unknown | ||||||||||||||||||||
Components of the solutions | *PLUS
|
-Data collection
Reflection | *PLUS Highest resolution: 1.7 Å / Num. obs: 14893 / % possible obs: 93 % / Num. measured all: 38517 / Rmerge(I) obs: 0.051 |
---|
-Processing
Software |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Resolution: 1.7→8 Å / σ(F): 2 /
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.7→8 Å
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Rfactor obs: 0.162 / Rfactor Rwork: 0.162 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS Biso mean: 22.46 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
|