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Yorodumi- PDB-1uij: Crystal Structure Of Soybean beta-Conglycinin Beta Homotrimer (I1... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1uij | ||||||
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Title | Crystal Structure Of Soybean beta-Conglycinin Beta Homotrimer (I122M/K124W) | ||||||
Components | beta subunit of beta conglycinin | ||||||
Keywords | SUGAR BINDING PROTEIN / double-stranded beta helix / seed storage protein | ||||||
Function / homology | Function and homology information aleurone grain / protein storage vacuole / nutrient reservoir activity / endoplasmic reticulum Similarity search - Function | ||||||
Biological species | Glycine max (soybean) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.5 Å | ||||||
Authors | Maruyama, N. / Maruyama, Y. / Tsuruki, T. / Okuda, E. / Yoshikawa, M. / Utsumi, S. | ||||||
Citation | Journal: BIOCHIM.BIOPHYS.ACTA / Year: 2003 Title: Creation of soybean beta-conglycinin beta with strong phagocytosis-stimulating activity Authors: Maruyama, N. / Maruyama, Y. / Tsuruki, T. / Okuda, E. / Yoshikawa, M. / Utsumi, S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1uij.cif.gz | 440.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1uij.ent.gz | 363.2 KB | Display | PDB format |
PDBx/mmJSON format | 1uij.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1uij_validation.pdf.gz | 498.9 KB | Display | wwPDB validaton report |
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Full document | 1uij_full_validation.pdf.gz | 603.2 KB | Display | |
Data in XML | 1uij_validation.xml.gz | 88.1 KB | Display | |
Data in CIF | 1uij_validation.cif.gz | 118.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ui/1uij ftp://data.pdbj.org/pub/pdb/validation_reports/ui/1uij | HTTPS FTP |
-Related structure data
Related structure data | |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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2 |
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Unit cell |
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-Components
#1: Protein | Mass: 48108.562 Da / Num. of mol.: 6 / Mutation: I122M/K124W Source method: isolated from a genetically manipulated source Source: (gene. exp.) Glycine max (soybean) / Plasmid: pET21d / Production host: Escherichia coli (E. coli) / References: UniProt: P25974 #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.55 Å3/Da / Density % sol: 51.44 % |
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Crystal grow | Method: vapor diffusion, hanging drop / Details: VAPOR DIFFUSION, HANGING DROP |
-Data collection
Diffraction source | Source: SYNCHROTRON / Site: SPring-8 / Beamline: BL41XU / Wavelength: 0.71 Å |
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Detector | Type: MARRESEARCH / Detector: CCD |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.71 Å / Relative weight: 1 |
Reflection | Resolution: 2.5→20 Å / Num. all: 87168 / Observed criterion σ(I): 0 / Rmerge(I) obs: 0.053 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 2.5→8 Å / σ(F): 2
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Refinement step | Cycle: LAST / Resolution: 2.5→8 Å
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