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Open data
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Basic information
Entry | Database: PDB / ID: 4r0o | ||||||
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Title | Crystal structure of PEGylated plastocyanin at 4.2 A resolution | ||||||
![]() | Plastocyanin | ||||||
![]() | ELECTRON TRANSPORT / PEGylation | ||||||
Function / homology | ![]() electron transporter, transferring electrons from cytochrome b6/f complex of photosystem II activity / plasma membrane-derived thylakoid membrane / copper ion binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Cattani, G. / Vogeley, L. / Crowley, P.B. | ||||||
![]() | ![]() Title: Structure of a PEGylated protein reveals a highly porous double-helical assembly. Authors: Cattani, G. / Vogeley, L. / Crowley, P.B. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 93.3 KB | Display | ![]() |
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PDB format | ![]() | 71.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 446.3 KB | Display | ![]() |
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Full document | ![]() | 449.1 KB | Display | |
Data in XML | ![]() | 15.5 KB | Display | |
Data in CIF | ![]() | 21.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2w88S S: Starting model for refinement |
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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
#1: Protein | Mass: 11551.052 Da / Num. of mol.: 4 / Fragment: UNP residues 35-139 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | ChemComp-CU / #3: Chemical | ChemComp-LCY / |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 6.28 Å3/Da / Density % sol: 80.42 % |
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Crystal grow | Temperature: 293.15 K / Method: vapor diffusion, hanging drop / pH: 6.3 Details: 48 % AMMONIUM SULPHATE, 30 mM POTASSIUM FERRICYANIDE, 100 mM SODIUM ACETATE, pH 6.3, VAPOR DIFFUSION, HANGING DROP, temperature 293.15K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: PSI PILATUS 6M / Detector: PIXEL / Date: Oct 13, 2013 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9686 Å / Relative weight: 1 |
Reflection | Resolution: 4.2→44.47 Å / Num. all: 9100 / Num. obs: 9064 / % possible obs: 99.6 % / Redundancy: 5.6 % / Biso Wilson estimate: 174.864 Å2 / Rmerge(I) obs: 0.35 / Rsym value: 0.379 / Net I/σ(I): 5.4 |
Reflection shell | Resolution: 4.2→4.31 Å / Redundancy: 5.9 % / Rmerge(I) obs: 0.01062 / Mean I/σ(I) obs: 1.7 / Num. unique all: 662 / Rsym value: 0.01152 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 2w88 Resolution: 4.2→43.035 Å / SU ML: 0.58 / Cross valid method: THROUGHOUT / σ(F): 1.36 / Phase error: 24.86 / 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 | ||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 121.577 Å2
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Refinement step | Cycle: LAST / Resolution: 4.2→43.035 Å
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Refine LS restraints |
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LS refinement shell |
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