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Yorodumi- PDB-4lzi: Characterization of Solanum tuberosum Multicystatin and Significa... -
+Open data
-Basic information
Entry | Database: PDB / ID: 4lzi | ||||||
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Title | Characterization of Solanum tuberosum Multicystatin and Significance of Core Domains | ||||||
Components | Multicystatin | ||||||
Keywords | HYDROLASE INHIBITOR / cystatin | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Solanum tuberosum (potato) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.2 Å | ||||||
Authors | Nissen, M.S. / Kumar, G.N. / Green, A.R. / Knowles, N.R. / Kang, C. | ||||||
Citation | Journal: Plant Cell / Year: 2013 Title: Characterization of Solanum tuberosum Multicystatin and the Significance of Core Domains. Authors: Green, A.R. / Nissen, M.S. / Kumar, G.N. / Knowles, N.R. / Kang, C. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4lzi.cif.gz | 73.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4lzi.ent.gz | 53.9 KB | Display | PDB format |
PDBx/mmJSON format | 4lzi.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/lz/4lzi ftp://data.pdbj.org/pub/pdb/validation_reports/lz/4lzi | HTTPS FTP |
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-Related structure data
Related structure data | 2w9pS S: Starting model for refinement |
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Similar structure data |
-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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-Components
#1: Protein | Mass: 32585.287 Da / Num. of mol.: 1 / Fragment: UNP residues 380-660 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Solanum tuberosum (potato) / Production host: Escherichia coli (E. coli) / References: UniProt: P37842 |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 3.2 Å3/Da / Density % sol: 61.56 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 4 Details: 0.4M Ammonium phosphate, VAPOR DIFFUSION, HANGING DROP, temperature 277K |
-Data collection
Diffraction | Mean temperature: 100 K | |||||||||||||||||||||||||||||||||
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Diffraction source | Source: SYNCHROTRON / Site: ALS / Beamline: 8.2.1 / Wavelength: 1 Å | |||||||||||||||||||||||||||||||||
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Nov 7, 2011 | |||||||||||||||||||||||||||||||||
Radiation | Monochromator: Double crystal Si(111)and multilayer / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||||||||||||||||||||||||||
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 | |||||||||||||||||||||||||||||||||
Reflection | Resolution: 1.49→25.21 Å / Num. obs: 51806 / % possible obs: 73.1 % / Observed criterion σ(F): -3 | |||||||||||||||||||||||||||||||||
Reflection shell |
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-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 2W9P Resolution: 2.2→25.121 Å / SU ML: 0.32 / σ(F): 1.35 / Phase error: 23.44 / 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 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.2→25.121 Å
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Refine LS restraints |
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LS refinement shell |
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