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Yorodumi- PDB-1snc: THE CRYSTAL STRUCTURE OF THE TERNARY COMPLEX OF STAPHYLOCOCCAL NU... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1snc | ||||||
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Title | THE CRYSTAL STRUCTURE OF THE TERNARY COMPLEX OF STAPHYLOCOCCAL NUCLEASE, CA2+, AND THE INHIBITOR PD*TP, REFINED AT 1.65 ANGSTROMS | ||||||
Components | THERMONUCLEASE PRECURSOR | ||||||
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: 1.65 Å | ||||||
Authors | Loll, P.J. / Lattman, E.E. | ||||||
Citation | Journal: Proteins / Year: 1989 Title: The crystal structure of the ternary complex of staphylococcal nuclease, Ca2+, and the inhibitor pdTp, refined at 1.65 A. Authors: Loll, P.J. / Lattman, E.E. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1snc.cif.gz | 42.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1snc.ent.gz | 28.7 KB | Display | PDB format |
PDBx/mmJSON format | 1snc.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1snc_validation.pdf.gz | 782 KB | Display | wwPDB validaton report |
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Full document | 1snc_full_validation.pdf.gz | 788.9 KB | Display | |
Data in XML | 1snc_validation.xml.gz | 10 KB | Display | |
Data in CIF | 1snc_validation.cif.gz | 12.8 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/sn/1snc ftp://data.pdbj.org/pub/pdb/validation_reports/sn/1snc | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Atom site foot note | 1: RESIDUE PRO 117 IS A CIS PROLINE. 2: RESIDUES HIS 8, LYS 28, GLN 30, LYS 45, HIS 46, LYS 48, LYS 49, LYS 53, LYS 97, LYS 133, AND LYS 134 HAVE DISORDERED SIDE-CHAINS. |
-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 |
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#2: Chemical | ChemComp-CA / |
#3: Chemical | ChemComp-THP / |
#4: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.17 Å3/Da / Density % sol: 43.34 % | ||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | *PLUS Temperature: 4 ℃ / pH: 8.15 / Method: vapor diffusion | ||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Reflection | *PLUS Highest resolution: 1.6 Å / Lowest resolution: 10 Å / Num. obs: 11332 / % possible obs: 61 % / Rmerge(I) obs: 0.025 |
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Reflection shell | *PLUS Highest resolution: 1.65 Å / Lowest resolution: 1.7 Å / Rmerge(I) obs: 0.022 |
-Processing
Software | Name: PROLSQ / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Refinement | Resolution: 1.65→6 Å /
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Refinement step | Cycle: LAST / Resolution: 1.65→6 Å
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Refine LS restraints |
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