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- PDB-1qy7: The structure of the PII protein from the cyanobacteria Synechoco... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1qy7 | ||||||
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Title | The structure of the PII protein from the cyanobacteria Synechococcus sp. PCC 7942 | ||||||
![]() | Nitrogen regulatory protein P-II | ||||||
![]() | TRANSCRIPTION / alpha/beta | ||||||
Function / homology | ![]() regulation of nitrogen utilization / enzyme regulator activity / ATP binding / identical protein binding / cytosol Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Xu, Y. / Carr, P.D. / Clancy, P. / Garcia-Dominguez, M. / Forchhammer, K. / Florencio, F. / Tandeau de Marsac, N. / Vasudevan, S.G. / Ollis, D.L. | ||||||
![]() | ![]() Title: The structures of the PII proteins from the cyanobacteria Synechococcus sp. PCC 7942 and Synechocystis sp. PCC 6803. Authors: Xu, Y. / Carr, P.D. / Clancy, P. / Garcia-Dominguez, M. / Forchhammer, K. / Florencio, F. / Vasudevan, S.G. / Tandeau de Marsac, N. / Ollis, D.L. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 80.9 KB | Display | ![]() |
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PDB format | ![]() | 60.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 449.9 KB | Display | ![]() |
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Full document | ![]() | 452.6 KB | Display | |
Data in XML | ![]() | 15.5 KB | Display | |
Data in CIF | ![]() | 20.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1ul3C ![]() 2piiS S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 12393.347 Da / Num. of mol.: 3 / Mutation: S49A 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: 2.12 Å3/Da / Density % sol: 41.62 % | ||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 8.5 Details: Lithium sulfate, Nickel chloride, TRIS, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 293 K / Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 277 K |
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Diffraction source | Source: ![]() |
Detector | Type: RIGAKU RAXIS IIC / Detector: IMAGE PLATE / Date: Apr 2, 2002 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2→25 Å / Num. obs: 19247 / Observed criterion σ(F): 1 / Observed criterion σ(I): 1 / Rmerge(I) obs: 0.059 / Net I/σ(I): 8.5 |
Reflection shell | Resolution: 2→2.07 Å / Rmerge(I) obs: 0.241 / Mean I/σ(I) obs: 3.1 / % possible all: 80.2 |
Reflection | *PLUS Lowest resolution: 25 Å / % possible obs: 84 % / Num. measured all: 68888 |
Reflection shell | *PLUS Lowest resolution: 2.1 Å / % possible obs: 80.2 % |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 2PII Resolution: 2→25 Å / Isotropic thermal model: Isotropic / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber / Details: maximum likelihood
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Displacement parameters | Biso mean: 19.2 Å2 | ||||||||||||||||||||
Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2→25 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2→2.07 Å
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Refinement | *PLUS Lowest resolution: 25 Å / % reflection Rfree: 8.2 % / Rfactor Rwork: 0.2 | ||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||
Refine LS restraints | *PLUS
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