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- PDB-2p2d: Crystal Structure and Allosteric Regulation of the Cytoplasmic Es... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2p2d | ||||||
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Title | Crystal Structure and Allosteric Regulation of the Cytoplasmic Escherichia coli L-Asparaginase I | ||||||
![]() | L-ASPARAGINASE I | ||||||
![]() | TRANSFERASE / Asparaginase | ||||||
Function / homology | ![]() asparagine catabolic process via L-aspartate / asparaginase / asparaginase activity / protein homotetramerization / identical protein binding / cytoplasm / cytosol Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Yun, M.-K. / Nourse, A. / White, S.W. / Rock, C.O. / Heath, R.J. | ||||||
![]() | ![]() Title: Crystal Structure and Allosteric Regulation of the Cytoplasmic Escherichia colil-Asparaginase I Authors: Yun, M.-K. / Nourse, A. / White, S.W. / Rock, C.O. / Heath, R.J. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 271.6 KB | Display | ![]() |
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PDB format | ![]() | 218 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 476 KB | Display | ![]() |
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Full document | ![]() | 486.9 KB | Display | |
Data in XML | ![]() | 51.9 KB | Display | |
Data in CIF | ![]() | 72.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2himC ![]() 2p2nC ![]() 1wlsS 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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1 |
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Unit cell |
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Components
#1: Protein | Mass: 39335.461 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Chemical | ChemComp-GOL / #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.42 Å3/Da / Density % sol: 49.23 % |
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, hanging drop / pH: 6 Details: 0.1M MES, 22.5% MPD, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 291.0K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Mar 6, 2005 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.01259 Å / Relative weight: 1 |
Reflection | Resolution: 1.88→50 Å / Num. all: 116888 / Num. obs: 116888 / % possible obs: 96.2 % / Observed criterion σ(I): -3 / Redundancy: 4 % / Rsym value: 0.08 / Net I/σ(I): 18.2 |
Reflection shell | Resolution: 1.88→1.93 Å / Redundancy: 3.6 % / Mean I/σ(I) obs: 4.4 / Num. unique all: 7454 / Rsym value: 0.31 / % possible all: 85.8 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1WLS Resolution: 1.89→50 Å / Rfactor Rfree error: 0.003 / Data cutoff high absF: 2183150.92 / Data cutoff low absF: 0 / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 51.2735 Å2 / ksol: 0.368057 e/Å3 | ||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.89→50 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.89→1.96 Å / Rfactor Rfree error: 0.01 / Total num. of bins used: 10
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Xplor file |
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