+Open data
-Basic information
Entry | Database: PDB / ID: 5vh1 | |||||||||
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Title | Crystal Structure of Chicken Gamma S Crystallin | |||||||||
Components | Gamma S-crystallin | |||||||||
Keywords | PROTEIN BINDING / crystallin lens beta sheet two domain | |||||||||
Function / homology | Function and homology information structural constituent of eye lens / lens development in camera-type eye / visual perception / morphogenesis of an epithelium Similarity search - Function | |||||||||
Biological species | Gallus gallus (chicken) | |||||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 2.3 Å | |||||||||
Authors | Sagar, V. / Wistow, G. | |||||||||
Citation | Journal: Structure / Year: 2017 Title: Crystal Structure of Chicken gamma S-Crystallin Reveals Lattice Contacts with Implications for Function in the Lens and the Evolution of the beta gamma-Crystallins. Authors: Sagar, V. / Chaturvedi, S.K. / Schuck, P. / Wistow, G. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 5vh1.cif.gz | 89 KB | Display | PDBx/mmCIF format |
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PDB format | pdb5vh1.ent.gz | 66.3 KB | Display | PDB format |
PDBx/mmJSON format | 5vh1.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/vh/5vh1 ftp://data.pdbj.org/pub/pdb/validation_reports/vh/5vh1 | HTTPS FTP |
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-Related structure data
Related structure data | 1zwoS 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: 20696.186 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Gallus gallus (chicken) / Gene: CRYGS / Production host: Escherichia coli (E. coli) / References: UniProt: D0UYB8 |
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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: 1.96 Å3/Da / Density % sol: 37.16 % |
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Crystal grow | Temperature: 297 K / Method: vapor diffusion, hanging drop / Details: 0.2 M Ammonium acetate pH 7.1 and 16% PEG 3350 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU MICROMAX-007 HF / Wavelength: 1.5418 Å |
Detector | Type: RIGAKU SATURN A200 / Detector: CCD / Date: Aug 24, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.3→40 Å / Num. obs: 7149 / % possible obs: 95 % / Redundancy: 3.3 % / Rsym value: 0.053 / Net I/σ(I): 40 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 1ZWO Resolution: 2.3→26.241 Å / SU ML: 0.16 / Cross valid method: FREE R-VALUE / σ(F): 1.41 / Phase error: 21.54 / 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: 2.3→26.241 Å
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Refine LS restraints |
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LS refinement shell |
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Refinement TLS params. | Method: refined / Origin x: -5.6334 Å / Origin y: -20.8446 Å / Origin z: 12.2005 Å
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Refinement TLS group | Selection details: chain 'A' and ((resseq 1:177)) |