+Open data
-Basic information
Entry | Database: PDB / ID: 2wj5 | ||||||
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Title | Rat alpha crystallin domain | ||||||
Components | HEAT SHOCK PROTEIN BETA-6Heat shock response | ||||||
Keywords | CHAPERONE / DISULFIDE BOND / STRESS RESPONSE | ||||||
Function / homology | Function and homology information regulation of muscle contraction / structural constituent of eye lens / negative regulation of cardiac muscle cell apoptotic process / chaperone-mediated protein folding / positive regulation of angiogenesis / unfolded protein binding / protein-folding chaperone binding / nucleolus / Golgi apparatus / protein homodimerization activity ...regulation of muscle contraction / structural constituent of eye lens / negative regulation of cardiac muscle cell apoptotic process / chaperone-mediated protein folding / positive regulation of angiogenesis / unfolded protein binding / protein-folding chaperone binding / nucleolus / Golgi apparatus / protein homodimerization activity / extracellular region / nucleus / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | RATTUS NORVEGICUS (Norway rat) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.12 Å | ||||||
Authors | Naylor, C.E. / Bagneris, C. / Bateman, O.A. / Cronin, N. / Keep, N.H. / Slingsby, C. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2009 Title: Crystal Structures of Alpha-Crystallin Domain Dimers of Alphab-Crystallin and Hsp20. Authors: Bagneris, C. / Bateman, O.A. / Naylor, C.E. / Cronin, N. / Boelens, W.C. / Keep, N.H. / Slingsby, C. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2wj5.cif.gz | 64.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2wj5.ent.gz | 48.4 KB | Display | PDB format |
PDBx/mmJSON format | 2wj5.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/wj/2wj5 ftp://data.pdbj.org/pub/pdb/validation_reports/wj/2wj5 | HTTPS FTP |
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-Related structure data
Related structure data | 2wj7C 1gmeS C: citing same article (ref.) 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: 10844.139 Da / Num. of mol.: 1 / Fragment: ALPHA-CRYSTALLIN DOMAIN, RESIDUES 65-162 Source method: isolated from a genetically manipulated source Source: (gene. exp.) RATTUS NORVEGICUS (Norway rat) / Production host: ESCHERICHIA COLI (E. coli) / References: UniProt: P97541 |
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#2: Water | ChemComp-HOH / |
Sequence details | THE ALPHA-CRYSTALLIN |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.66 Å3/Da / Density % sol: 54 % / Description: NONE |
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Crystal grow | Temperature: 289 K / Method: vapor diffusion / pH: 6.5 Details: SINGLE CRYSTALS OF RAT HSP20 ACD GREW AT 16 DEGREESIN 100 MM MES PH 6.5, BETWEEN 45-52% V/V PEG 200, AT A PROTEIN CONCENTRATION OF AROUND 10 MG/ML USING 1 UL PROTEIN SOLUTION AND 2 UL RESERVOIR SOLUTION. |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: Diamond / Beamline: I04 / Wavelength: 0.9757 |
Detector | Type: ADSC CCD / Detector: CCD / Date: Jan 5, 2008 |
Radiation | Monochromator: SI CRYSTAL / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9757 Å / Relative weight: 1 |
Reflection | Resolution: 1.12→28 Å / Num. obs: 39225 / % possible obs: 91.6 % / Observed criterion σ(I): 0 / Redundancy: 6.7 % / Biso Wilson estimate: 8.4 Å2 / Rmerge(I) obs: 0.09 / Net I/σ(I): 10.7 |
Reflection shell | Resolution: 1.12→1.15 Å / Redundancy: 4.5 % / Rmerge(I) obs: 0.4 / Mean I/σ(I) obs: 2.5 / % possible all: 51.5 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1GME Resolution: 1.12→28.071 Å / SU ML: 0.09 / σ(F): 1.38 / Phase error: 16.21 / 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 / Bsol: 99 Å2 / ksol: 0.426 e/Å3 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 18.6 Å2
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Refinement step | Cycle: LAST / Resolution: 1.12→28.071 Å
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Refine LS restraints |
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LS refinement shell |
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