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- PDB-2qtk: Crystal Structure of the outer membrane protein opdK from Pseudom... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2qtk | ||||||
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Title | Crystal Structure of the outer membrane protein opdK from Pseudomonas aeruginosa | ||||||
![]() | Probable porin | ||||||
![]() | MEMBRANE PROTEIN / Outer membrane protein / beta barrel / vanillate transport / Porin | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Biswas, S. / Van den Berg, B. | ||||||
![]() | ![]() Title: Crystal Structure of the Outer Membrane Protein OpdK from Pseudomonas aeruginosa. Authors: Biswas, S. / Mohammad, M.M. / Movileanu, L. / van den Berg, 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 | ![]() | 158.2 KB | Display | ![]() |
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PDB format | ![]() | 126.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 3 MB | Display | ![]() |
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Full document | ![]() | 3 MB | Display | |
Data in XML | ![]() | 35.1 KB | Display | |
Data in CIF | ![]() | 45.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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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Details | The biological unit is monomer of OpdK |
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Components
#1: Protein | Mass: 42993.523 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Details: Protein expression under the control of the arabinose promoter Source: (gene. exp.) ![]() ![]() Plasmid: OpdK gene with ShlB signal sequence cloned into pB22 with 8 His tag Production host: ![]() ![]() #2: Chemical | ChemComp-C8E / ( |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.8 Å3/Da / Density % sol: 55.99 % |
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Crystal grow | Temperature: 295 K / Method: vapor diffusion, hanging drop / pH: 6 Details: Classic screen condition #87 from Nextal, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 295K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Feb 25, 2007 / Details: Platinum coated mirror |
Radiation | Monochromator: Si 111 double crystal / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97 Å / Relative weight: 1 |
Reflection | Resolution: 2.8→50 Å / Num. all: 23772 / Num. obs: 23167 / % possible obs: 98.7 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 14.1 % / Biso Wilson estimate: 20.4 Å2 / Net I/σ(I): 18.29 |
Reflection shell | Resolution: 2.8→2.9 Å / Redundancy: 6.5 % / Mean I/σ(I) obs: 2.7 / % possible all: 90.1 |
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Processing
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Refinement | Method to determine structure: ![]()
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.8→10 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.8→2.94 Å / Rfactor Rfree error: 0.023
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