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Yorodumi- PDB-3olq: The crystal structure of a universal stress protein E from Proteu... -
+Open data
-Basic information
Entry | Database: PDB / ID: 3olq | ||||||
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Title | The crystal structure of a universal stress protein E from Proteus mirabilis HI4320 | ||||||
Components | Universal stress protein E | ||||||
Keywords | structural genomics / unknown function / PSI-2 / protein structure initiative / midwest center for structural genomics / MCSG | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Proteus mirabilis (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 1.816 Å | ||||||
Authors | Tan, K. / Chhor, G. / Bearden, J. / Joachimiak, A. / Midwest Center for Structural Genomics (MCSG) | ||||||
Citation | Journal: To be Published Title: The crystal structure of a universal stress protein E from Proteus mirabilis HI4320 Authors: Tan, K. / Chhor, G. / Bearden, J. / Joachimiak, A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3olq.cif.gz | 139 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3olq.ent.gz | 114 KB | Display | PDB format |
PDBx/mmJSON format | 3olq.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 3olq_validation.pdf.gz | 460.2 KB | Display | wwPDB validaton report |
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Full document | 3olq_full_validation.pdf.gz | 462.9 KB | Display | |
Data in XML | 3olq_validation.xml.gz | 16.3 KB | Display | |
Data in CIF | 3olq_validation.cif.gz | 23.8 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ol/3olq ftp://data.pdbj.org/pub/pdb/validation_reports/ol/3olq | HTTPS FTP |
-Related structure data
Similar structure data | |
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Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Components on special symmetry positions |
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Details | Experimentally unknown. It is predicted that the chain A and its symmetry-related molecule (y,x,-z) may form a dimer. |
-Components
-Protein , 1 types, 1 molecules A
#1: Protein | Mass: 36550.934 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Proteus mirabilis (bacteria) / Strain: HI4320 / Gene: PMI1202, uspE / Plasmid: pMCSG7 / Production host: Escherichia coli (E. coli) / Strain (production host): BL21 / References: UniProt: B4ETT2 |
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-Non-polymers , 5 types, 274 molecules
#2: Chemical | #3: Chemical | ChemComp-PEG / | #4: Chemical | ChemComp-ACT / | #5: Chemical | ChemComp-UNL / | Num. of mol.: 1 / Source method: obtained synthetically #6: 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: 3 Å3/Da / Density % sol: 59.01 % |
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Crystal grow | Temperature: 289 K / Method: vapor diffusion, sitting drop / pH: 8 Details: 0.4M NaH2PO4/1.6M K2HPO4, 0.1M imidazole, 0.2M NaCl, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 289K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 19-ID / Wavelength: 0.97934 Å |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Jun 7, 2010 / Details: mirror |
Radiation | Monochromator: Si 111 crystal / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97934 Å / Relative weight: 1 |
Reflection | Resolution: 1.816→34.5 Å / Num. all: 40612 / Num. obs: 40612 / % possible obs: 99.8 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 7.1 % / Rmerge(I) obs: 0.093 / Net I/σ(I): 31.6 |
Reflection shell | Resolution: 1.82→1.85 Å / Redundancy: 7.1 % / Rmerge(I) obs: 0.81 / Mean I/σ(I) obs: 2.5 / Num. unique all: 1982 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 1.816→34.36 Å / SU ML: 0.16 / σ(F): 0.06 / σ(I): 0 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL / Bsol: 47.944 Å2 / ksol: 0.378 e/Å3 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 1.816→34.36 Å
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Refine LS restraints |
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LS refinement shell |
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Refinement TLS params. | Method: refined / Origin x: 22.3563 Å / Origin y: 21.2465 Å / Origin z: 14.1598 Å
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Refinement TLS group | Selection details: chain A |