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Yorodumi- PDB-1th7: Crystal Structure of an Archaeal Sm Protein from Sulfolobus solfa... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1th7 | ||||||
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Title | Crystal Structure of an Archaeal Sm Protein from Sulfolobus solfataricus | ||||||
Components | Small nuclear riboprotein protein | ||||||
Keywords | RNA BINDING PROTEIN / archaea / SM protein / SM fold / SS-SM1 | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Sulfolobus solfataricus (archaea) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.68 Å | ||||||
Authors | Kilic, T. / Suck, D. | ||||||
Citation | Journal: Proteins / Year: 2005 Title: Crystal structure of an archaeal Sm protein from Sulfolobus solfataricus Authors: Kilic, T. / Thore, S. / Suck, D. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1th7.cif.gz | 216.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1th7.ent.gz | 176 KB | Display | PDB format |
PDBx/mmJSON format | 1th7.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/th/1th7 ftp://data.pdbj.org/pub/pdb/validation_reports/th/1th7 | HTTPS FTP |
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-Related structure data
Related structure data | 1i4kS S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 8818.146 Da / Num. of mol.: 14 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Sulfolobus solfataricus (archaea) / Gene: snRNP-2 / Plasmid: pET24 / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: Q97ZQ0 #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.42 Å3/Da / Density % sol: 48.6 % |
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Crystal grow | Temperature: 295 K / Method: vapor diffusion, hanging drop / pH: 8 Details: 25% PEG 3350, 0.3M Lithium Sulfate, 0.1M Tris Buffer, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 295K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: SLS / Beamline: X06SA / Wavelength: 0.9793 Å |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Jan 21, 2004 |
Radiation | Monochromator: SAGITALLY FOCUSED Si(111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9793 Å / Relative weight: 1 |
Reflection | Resolution: 1.68→40 Å / Num. all: 133678 / Num. obs: 132245 / % possible obs: 98.9 % / Observed criterion σ(I): -3 / Biso Wilson estimate: 20.7 Å2 |
Reflection shell | Resolution: 1.68→1.74 Å / % possible all: 98.2 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1I4K Resolution: 1.68→35.28 Å / Rfactor Rfree error: 0.003 / Data cutoff high absF: 2411083.3 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 37.9717 Å2 / ksol: 0.374549 e/Å3 | ||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 23.4 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 1.68→35.28 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.68→1.74 Å / Rfactor Rfree error: 0.008 / Total num. of bins used: 6
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Xplor file |
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