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- PDB-5uto: The crystal structure of the Staphylococcus aureus Fatty acid Kin... -
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Open data
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Basic information
Entry | Database: PDB / ID: 5uto | ||||||
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Title | The crystal structure of the Staphylococcus aureus Fatty acid Kinase (Fak) B1 protein loaded with palmitic acid to 1.83 Angstrom resolution | ||||||
![]() | EDD domain protein, DegV family | ||||||
![]() | TRANSPORT PROTEIN / Staphylococcus aureus / FakB1 / palmitic acid | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Cuypers, M.G. / Ericson, M. / Subramanian, C. / Broussard, T.C. / Miller, D.J. / White, S.W. / Rock, C.O. | ||||||
![]() | ![]() Title: The crystal structure of the Staphylococcus aureus Fatty acid Kinase (Fak) B1 protein loaded with palmitic acid to 1.83 Angstroem resolution Authors: Cuypers, M.G. / Ericson, M. / Subramanian, C. / Broussard, T.C. / Miller, D.J. / White, S.W. / Rock, C.O. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 144.6 KB | Display | ![]() |
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PDB format | ![]() | 110.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 5uxyC ![]() 5v85C ![]() 4x9xS 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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1 | ![]()
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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 34272.852 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: ERS072738_00223, ERS072840_01626, ERS074020_00218, HMPREF3211_01094 Production host: ![]() ![]() #2: Chemical | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.17 Å3/Da / Density % sol: 43.43 % / Description: elongated prisms |
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, hanging drop / pH: 6.5 Details: pH 6.5 0.1M MES/Imidazole, 12.5?% PEG1000, 12.5?% PEG3350, 12.5?% MPD, 0.03M NaNO3, 0.03M Na2HPO4, 0.03M (NH4)2 SO4 Temp details: controlled temperature room |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: RAYONIX MX300-HS / Detector: CCD / Date: Apr 1, 2016 / Details: Si(111) |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.83→48.83 Å / Num. obs: 46256 / % possible obs: 97.1 % / Redundancy: 3.1 % / Biso Wilson estimate: 15.21 Å2 / CC1/2: 0.998 / Rmerge(I) obs: 0.057 / Rpim(I) all: 0.046 / Rrim(I) all: 0.082 / Net I/σ(I): 12.3 |
Reflection shell | Resolution: 1.83→1.87 Å / Redundancy: 3 % / Rmerge(I) obs: 0.468 / Mean I/σ(I) obs: 1.9 / Num. unique obs: 2815 / CC1/2: 0.694 / Rpim(I) all: 0.443 / Rrim(I) all: 0.782 / % possible all: 95.3 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 4X9X Resolution: 1.83→38.034 Å / SU ML: 0.19 / Cross valid method: FREE R-VALUE / σ(F): 1.96 / Phase error: 20.11 / Details: Automated water placement.
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.83→38.034 Å
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Refine LS restraints |
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LS refinement shell |
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