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Open data
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Basic information
Entry | Database: PDB / ID: 2jdj | ||||||
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Title | crystal structure of HapK from Hahella chejuensis | ||||||
![]() | REDY-LIKE PROTEIN | ||||||
![]() | BIOSYNTHETIC PROTEIN / PRODIGIOSIN / BIOSYNTHESIS | ||||||
Function / homology | REDY-like protein HapK / REDY-like protein HapK / Alpha-Beta Plaits - #100 / Alpha-Beta Plaits / 2-Layer Sandwich / Alpha Beta / ISOPROPYL ALCOHOL / RedY-like protein![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Kang, B.S. / Cho, H.J. / Kim, K.J. | ||||||
![]() | ![]() Title: Structural Insight of the Role of the Hahella Chejuensis Hapk Protein in Prodigiosin Biosynthesis. Authors: Cho, H.J. / Kim, K. / Kim, M.H. / Kang, B.S. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 54.6 KB | Display | ![]() |
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PDB format | ![]() | 43.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 458.7 KB | Display | ![]() |
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Full document | ![]() | 459.6 KB | Display | |
Data in XML | ![]() | 12.2 KB | Display | |
Data in CIF | ![]() | 16.7 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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2 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 11795.713 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | ChemComp-SO4 / #3: Chemical | ChemComp-IPA / #4: Chemical | #5: Water | ChemComp-HOH / | Sequence details | ABB69083.1 | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.7 Å3/Da / Density % sol: 53.4 % / Description: NONE |
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Crystal grow | pH: 6.5 / Details: 1.8 M AMMONIUM SULFATE, 7% ISOPROPANOL, pH 6.5 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() |
Detector | Type: ADSC CCD / Detector: CCD / Date: Apr 5, 2006 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97949 Å / Relative weight: 1 |
Reflection | Resolution: 2→50 Å / Num. obs: 35383 / % possible obs: 100 % / Observed criterion σ(I): 8 / Redundancy: 11 % / Rmerge(I) obs: 0.08 / Net I/σ(I): 44 |
Reflection shell | Resolution: 2→2.07 Å / Redundancy: 11 % / Rmerge(I) obs: 0.29 / Mean I/σ(I) obs: 8.6 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: NONE Resolution: 2→28.52 Å / Cor.coef. Fo:Fc: 0.955 / Cor.coef. Fo:Fc free: 0.939 / SU B: 4.098 / SU ML: 0.113 / Cross valid method: THROUGHOUT / ESU R: 0.171 / ESU R Free: 0.151 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS.
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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: 28.56 Å2
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Refinement step | Cycle: LAST / Resolution: 2→28.52 Å
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Refine LS restraints |
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