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- PDB-2e69: Crystal structure of the stationary phase survival protein SurE f... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2.0E+69 | ||||||
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Title | Crystal structure of the stationary phase survival protein SurE from Thermus thermophilus HB8 in complex with sulfate | ||||||
![]() | 5'-nucleotidase surE | ||||||
![]() | HYDROLASE / SurE protein | ||||||
Function / homology | ![]() 3'-nucleotidase activity / exopolyphosphatase activity / XMP 5'-nucleosidase activity / 5'-nucleotidase / nucleotide binding / metal ion binding / cytoplasm Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Iwasaki, W. / Miki, K. | ||||||
![]() | ![]() Title: Crystal Structure of the Stationary Phase Survival Protein SurE with Metal Ion and AMP Authors: Iwasaki, W. / Miki, K. | ||||||
History |
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Remark 300 | BIOMOLECULE 1 This entry contains the crystallographic asymmetric unit which consists of 4 chain(s) ...BIOMOLECULE 1 This entry contains the crystallographic asymmetric unit which consists of 4 chain(s) forming a tetramer. This protein is in a dimer-tetramer equilibrium in solution. It is unknown whether this protein is functional as a dimer or a tetramer. |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 194 KB | Display | ![]() |
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PDB format | ![]() | 155.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 481.3 KB | Display | ![]() |
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Full document | ![]() | 496.9 KB | Display | |
Data in XML | ![]() | 36.6 KB | Display | |
Data in CIF | ![]() | 50.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2e6bC ![]() 2e6cC ![]() 2e6eC ![]() 2e6gC ![]() 2e6hC ![]() 1ilvS C: citing same article ( S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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2 | ![]()
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3 | ![]()
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Unit cell |
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Details | probably tetramer |
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Components
#1: Protein | Mass: 26625.287 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Chemical | ChemComp-SO4 / #3: Chemical | #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.09 Å3/Da / Density % sol: 60.16 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion / pH: 8.5 Details: 0.1M Tris-HCl pH8.5, 0.75M ammonium sulhate, 10% glycerol, VAPOR DIFFUSION, temperature 293K |
-Data collection
Diffraction | Mean temperature: 90 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 210 / Detector: CCD / Date: Apr 14, 2005 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→50 Å / Num. obs: 67207 / % possible obs: 99.9 % / Biso Wilson estimate: 24.6 Å2 / Rmerge(I) obs: 0.047 / Net I/σ(I): 16.4 |
Reflection shell | Resolution: 2.2→2.28 Å / Rmerge(I) obs: 0.302 / Mean I/σ(I) obs: 7 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB entry 1ILV Resolution: 2.2→43.06 Å / Rfactor Rfree error: 0.004 / Data cutoff high absF: 3080294.27 / 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: 40.9784 Å2 / ksol: 0.37035 e/Å3 | ||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 36.8 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.2→43.06 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.2→2.34 Å / Rfactor Rfree error: 0.011 / Total num. of bins used: 6
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Xplor file |
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