+Open data
-Basic information
Entry | Database: PDB / ID: 2jdg | ||||||
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Title | Affilin based on HUMAN GAMMA-B CRYSTALLIN | ||||||
Components | GAMMA CRYSTALLIN B | ||||||
Keywords | STRUCTURAL PROTEIN / ARTIFICIAL BINDING PROTEIN / EYE LENS PROTEIN / GAMMA CRYSTALLIN / AFFILIN / OXIDATION / POLYMORPHISM / PHOSPHORYLATION | ||||||
Function / homology | Function and homology information lens fiber cell morphogenesis / structural constituent of eye lens / lens development in camera-type eye / visual perception / nucleus / cytoplasm Similarity search - Function | ||||||
Biological species | HOMO SAPIENS (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / OTHER / Resolution: 2 Å | ||||||
Authors | Ebersbach, H. / Fiedler, E. / Scheuermann, T. / Fiedler, M. / Stubbs, M.T. / Reimann, C. / Proetzel, G. / Rudolph, R. / Fiedler, U. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2007 Title: Affilin-Novel Binding Molecules Based on Human Gamma-B-Crystallin, an All Beta-Sheet Protein. Authors: Ebersbach, H. / Fiedler, E. / Scheuermann, T. / Fiedler, M. / Stubbs, M.T. / Reimann, C. / Proetzel, G. / Rudolph, R. / Fiedler, U. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2jdg.cif.gz | 48.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2jdg.ent.gz | 34.8 KB | Display | PDB format |
PDBx/mmJSON format | 2jdg.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/jd/2jdg ftp://data.pdbj.org/pub/pdb/validation_reports/jd/2jdg | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 21819.736 Da / Num. of mol.: 1 / Mutation: YES Source method: isolated from a genetically manipulated source Source: (gene. exp.) HOMO SAPIENS (human) Description: THIS IS A SYNTHETIC ENGINEERED BINDING VARIANT OF HUMAN GAMMA-B CRYSTALLIN Production host: ESCHERICHIA COLI (E. coli) / References: UniProt: P07316 |
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#2: Water | ChemComp-HOH / |
Compound details | ENGINEERED RESIDUE IN CHAIN A, LYS 2 TO SER ENGINEERED RESIDUE IN CHAIN A, THR 4 TO ILE ENGINEERED ...ENGINEERED |
Sequence details | THIS IS A VARIANT OF HUMAN GAMMA-B CRYSTALLIN |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 1.89 Å3/Da / Density % sol: 34.33 % / Description: NONE |
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-Data collection
Diffraction | Mean temperature: 110 K |
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Diffraction source | Source: SYNCHROTRON / Site: BESSY / Beamline: 14.1 / Wavelength: 1.12714 |
Detector | Type: MARRESEARCH / Detector: CCD |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.12714 Å / Relative weight: 1 |
Reflection | Resolution: 2→50 Å / Num. obs: 9698 / % possible obs: 85.5 % / Observed criterion σ(I): 0 / Redundancy: 3.5 % / Rmerge(I) obs: 0.06 |
-Processing
Software | Name: CNS / Classification: refinement | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Refinement | Method to determine structure: OTHER Starting model: NONE Resolution: 2→30 Å / Data cutoff high absF: 10000 / Cross valid method: THROUGHOUT / σ(F): 0
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Solvent computation | Bsol: 36.7246 Å2 / ksol: 0.364103 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 2→30 Å
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Refine LS restraints |
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