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- PDB-4kyc: Structure of the C-terminal domain of the Menangle virus phosphop... -
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Open data
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Basic information
Entry | Database: PDB / ID: 4kyc | |||||||||
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Title | Structure of the C-terminal domain of the Menangle virus phosphoprotein, fused to MBP. | |||||||||
![]() | Maltose-binding periplasmic protein, Phosphoprotein, chimeric construct | |||||||||
![]() | binding protein / viral protein / 3 helix bundle / viral nucleocapsid | |||||||||
Function / homology | ![]() detection of maltose stimulus / maltose transport complex / carbohydrate transport / carbohydrate transmembrane transporter activity / maltose binding / maltose transport / maltodextrin transmembrane transport / ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing / ATP-binding cassette (ABC) transporter complex / cell chemotaxis ...detection of maltose stimulus / maltose transport complex / carbohydrate transport / carbohydrate transmembrane transporter activity / maltose binding / maltose transport / maltodextrin transmembrane transport / ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing / ATP-binding cassette (ABC) transporter complex / cell chemotaxis / outer membrane-bounded periplasmic space / periplasmic space / DNA damage response / membrane Similarity search - Function | |||||||||
Biological species | ![]() ![]() ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Yegambaram, K. / Bulloch, E.M.M. / Kingston, R.L. | |||||||||
![]() | ![]() Title: Protein domain definition should allow for conditional disorder. Authors: Yegambaram, K. / Bulloch, E.M. / Kingston, R.L. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 105.3 KB | Display | ![]() |
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PDB format | ![]() | 78.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 862.2 KB | Display | ![]() |
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Full document | ![]() | 863.3 KB | Display | |
Data in XML | ![]() | 19.7 KB | Display | |
Data in CIF | ![]() | 29.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 4kydC ![]() 4kyeC ![]() 1hsjS C: citing same article ( 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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Unit cell |
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Components
#1: Protein | Mass: 46117.395 Da / Num. of mol.: 1 Fragment: unprot P0AEX9 residues 27-392, unprot Q91MK1 residues 339-388 Mutation: E172A, N173A, E359A, K362A, D363A, C352S Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() Strain: K12, Unnamed isolate / Gene: b4034, JW3994, malE, P, V/P / Plasmid: pMAL(B) / Production host: ![]() ![]() |
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#2: Polysaccharide | alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose / alpha-maltose |
#3: Chemical | ChemComp-EDO / |
#4: Chemical | ChemComp-BO3 / |
#5: Water | ChemComp-HOH / |
Sequence details | THE CRYSTALLIZ |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.24 Å3/Da / Density % sol: 62.04 % |
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Crystal grow | Temperature: 291.15 K / Method: vapor diffusion, sitting drop / pH: 9.1 Details: 24 %(w/v) PEG8000, 0.2 M Boric acid/KOH, pH 9.1, VAPOR DIFFUSION, SITTING DROP, temperature 291.15K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Aug 15, 2011 |
Radiation | Monochromator: Double Crystal Monochromator Si(111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9537 Å / Relative weight: 1 |
Reflection | Resolution: 1.95→36.76 Å / Num. all: 44924 / Num. obs: 44924 / % possible obs: 99.8 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 12.8 % / Net I/σ(I): 10.6 |
Reflection shell | Resolution: 1.95→1.98 Å / Redundancy: 13.4 % / Mean I/σ(I) obs: 2.7 / Num. unique all: 2027 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB accession 1HSJ Resolution: 1.95→36.76 Å / Cor.coef. Fo:Fc: 0.958 / Cor.coef. Fo:Fc free: 0.946 / SU B: 2.816 / SU ML: 0.081 / Isotropic thermal model: Individual Isotropic B-Factors / Cross valid method: THROUGHOUT / σ(F): 0 / σ(I): 0 / ESU R: 0.133 / ESU R Free: 0.124 / Stereochemistry target values: Engh & Huber
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 29.193 Å2
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Refinement step | Cycle: LAST / Resolution: 1.95→36.76 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.951→2.02 Å / Total num. of bins used: 15
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