+Open data
-Basic information
Entry | Database: PDB / ID: 4xh7 | ||||||
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Title | Crystal structure of MUPP1 PDZ4 | ||||||
Components | Multiple PDZ domain protein | ||||||
Keywords | SIGNALING PROTEIN / MUPP1 / PDZ domain | ||||||
Function / homology | Function and homology information : / Schmidt-Lanterman incisure / apicolateral plasma membrane / bicellular tight junction / myelination / cytoplasmic vesicle / postsynaptic density / cell adhesion / apical plasma membrane / dendrite / cytoplasm Similarity search - Function | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.65 Å | ||||||
Authors | Liu, Z. / Zhu, H. / Liu, W. | ||||||
Citation | Journal: Acta Biochim.Biophys.Sin. / Year: 2015 Title: Biochemical and structural characterization of MUPP1-PDZ4 domain from Mus musculus. Authors: Zhu, H. / Liu, Z. / Huang, Y. / Zhang, C. / Li, G. / Liu, W. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4xh7.cif.gz | 38.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4xh7.ent.gz | 22.9 KB | Display | PDB format |
PDBx/mmJSON format | 4xh7.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/xh/4xh7 ftp://data.pdbj.org/pub/pdb/validation_reports/xh/4xh7 | HTTPS FTP |
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-Related structure data
Related structure data | 3jxtS 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: 16199.199 Da / Num. of mol.: 1 / Fragment: PDZ 4 domain, UNP residues 521-665 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / Gene: Mpdz / Production host: Escherichia coli (E. coli) / References: UniProt: Q8VBX6 |
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#2: Chemical | ChemComp-IMD / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.01 Å3/Da / Density % sol: 38.91 % |
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Crystal grow | Temperature: 289 K / Method: vapor diffusion, sitting drop / pH: 7 Details: 2%(v/v) polyethylene glycol 400, 0.1 M imidazole, 24%(w/v) polyethylene glycol monoethyl ether 5000 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: SSRF / Beamline: BL17U / Wavelength: 1.0093 Å |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Dec 21, 2013 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.0093 Å / Relative weight: 1 |
Reflection | Resolution: 1.65→50 Å / Num. obs: 16041 / % possible obs: 99.4 % / Redundancy: 7.2 % / Net I/σ(I): 48.2 |
Reflection shell | Resolution: 1.65→1.68 Å / Redundancy: 7.8 % / Rmerge(I) obs: 0.773 / Mean I/σ(I) obs: 3.7 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 3JXT Resolution: 1.65→50 Å / SU ML: 0.13 / Cross valid method: FREE R-VALUE / σ(F): 1.35 / Phase error: 21.94 / 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: 1.65→50 Å
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Refine LS restraints |
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LS refinement shell |
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