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- PDB-6jc6: Crystal structure of the purple chromoprotein of Stichodactyla ha... -
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Open data
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Basic information
Entry | Database: PDB / ID: 6jc6 | ||||||||||||
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Title | Crystal structure of the purple chromoprotein of Stichodactyla haddoni with a Glu-Tyr-Gly tri-peptide chromophore | ||||||||||||
![]() | shCP | ||||||||||||
![]() | FLUORESCENT PROTEIN / Sea anemone / Green fluorescent protein / UV absorption / emission spectra / biomarker | ||||||||||||
Function / homology | Green Fluorescent Protein / Green fluorescent protein / Green fluorescent protein-related / Green fluorescent protein / Green fluorescent protein / bioluminescence / Beta Barrel / Mainly Beta / shCP![]() | ||||||||||||
Biological species | ![]() | ||||||||||||
Method | ![]() ![]() ![]() | ||||||||||||
![]() | Ko, T.P. / Huang, K.F. / Chang, H.Y. | ||||||||||||
Funding support | ![]()
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![]() | ![]() Title: Crystal structure of the blue fluorescent protein with a Leu-Leu-Gly tri-peptide chromophore derived from the purple chromoprotein of Stichodactyla haddoni. Authors: Chang, H.Y. / Ko, T.P. / Chang, Y.C. / Huang, K.F. / Lin, C.Y. / Chou, H.Y. / Chiang, C.Y. / Tsai, H.J. | ||||||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 402.9 KB | Display | ![]() |
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PDB format | ![]() | 330.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 484 KB | Display | ![]() |
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Full document | ![]() | 517.5 KB | Display | |
Data in XML | ![]() | 87.8 KB | Display | |
Data in CIF | ![]() | 123.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6jc5C ![]() 1yzwS S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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2 | ![]()
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3 | ![]()
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4 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 26145.812 Da / Num. of mol.: 8 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Water | ChemComp-HOH / | Sequence details | THE SEQUENCE OF THIS PROTEIN WAS NOT AVAILABLE AT THE UNIPROT KNOWLEDGEBASE DATABASE (UNIPROTKB) AT ...THE SEQUENCE OF THIS PROTEIN WAS NOT AVAILABLE AT THE UNIPROT KNOWLEDGEB | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.35 Å3/Da / Density % sol: 47.74 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / Details: 0.2 M lithium acetate and 20% PEG 3350 |
-Data collection
Diffraction | Mean temperature: 123 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: RAYONIX MX300HE / Detector: CCD / Date: Oct 10, 2017 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.9→29.9 Å / Num. obs: 143275 / % possible obs: 99.7 % / Redundancy: 6.1 % / Rmerge(I) obs: 0.06 / Net I/σ(I): 26.4 |
Reflection shell | Resolution: 1.9→1.97 Å / Rmerge(I) obs: 0.671 / Num. unique obs: 14815 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 1YZW Resolution: 1.9→27.936 Å / SU ML: 0.22 / Cross valid method: FREE R-VALUE / σ(F): 1.35 / Phase error: 23.99 Details: SF FILE CONTAINS FRIEDEL PAIRS UNDER I_MINUS AND I_PLUS COLUMNS.
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.9→27.936 Å
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Refine LS restraints |
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LS refinement shell |
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