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- PDB-2z53: Crystal structure of the S211A mutant of the ribosome inactivatin... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2z53 | ||||||
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Title | Crystal structure of the S211A mutant of the ribosome inactivating protein PDL4 from P. dioica leaves | ||||||
![]() | Ribosome-inactivating protein PD-L4 | ||||||
![]() | HYDROLASE / crystal / ribosome inactivating protein | ||||||
Function / homology | ![]() rRNA N-glycosylase / rRNA N-glycosylase activity / defense response / toxin activity / negative regulation of translation Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Berisio, R. / Ruggiero, A. | ||||||
![]() | ![]() Title: Atomic resolution (1.1 A) structure of the ribosome-inactivating protein PD-L4 from Phytolacca dioica L. leaves Authors: Ruggiero, A. / Chambery, A. / Di Maro, A. / Parente, A. / Berisio, R. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 138.4 KB | Display | ![]() |
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PDB format | ![]() | 107.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 436.6 KB | Display | ![]() |
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Full document | ![]() | 440.3 KB | Display | |
Data in XML | ![]() | 17.1 KB | Display | |
Data in CIF | ![]() | 27.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2qesC ![]() 2qetC ![]() 2z4uC ![]() 1qcgS 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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Unit cell |
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Components
#1: Protein | Mass: 29205.115 Da / Num. of mol.: 1 / Mutation: S211A Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() | ||
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#2: Chemical | #3: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.1 Å3/Da / Density % sol: 41.56 % |
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Crystal grow | Method: vapor diffusion / Details: VAPOR DIFFUSION |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MAR CCD 165 mm / Detector: CCD / Date: Apr 8, 2006 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Resolution: 1.29→30 Å / Num. all: 62029 / Num. obs: 61843 / Observed criterion σ(I): 1 |
Reflection shell | Highest resolution: 1.29 Å |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 1qcg Resolution: 1.29→10 Å / Isotropic thermal model: isotropic / Cross valid method: THROUGHOUT / σ(I): 1 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 1.29→10 Å
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Refine LS restraints |
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