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- PDB-5u9l: Crystal structure of the intermembrane space region of the plasti... -
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Open data
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Basic information
Entry | Database: PDB / ID: 5u9l | ||||||
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Title | Crystal structure of the intermembrane space region of the plastid division protein PARC6 | ||||||
![]() | PARALOG OF ACCUMULATION AND REPLICATION OF CHLOROPLASTS 6 (PARC6) | ||||||
![]() | CELL CYCLE / Plastid / cell division / chloroplast / intermembrane space | ||||||
Function / homology | ![]() plastid inner membrane / plastid fission / chloroplast inner membrane / chloroplast organization / chloroplast fission / chloroplast Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Delmar, J.D. / Chou, T.H. | ||||||
![]() | ![]() Title: Cocrystal structure of the intermembrane space region of the plastid division proteins PARC6 and PDV1 Authors: Delmar, J.A. / Yu, E.W. / Osteryoung, K.W. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 137.7 KB | Display | ![]() |
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PDB format | ![]() | 111 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 441.4 KB | Display | ![]() |
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Full document | ![]() | 445.6 KB | Display | |
Data in XML | ![]() | 13.7 KB | Display | |
Data in CIF | ![]() | 17.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related 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 on special symmetry positions |
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Components
#1: Protein | Mass: 26533.930 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Chemical | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.7 Å3/Da / Density % sol: 27.6 % |
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Crystal grow | Temperature: 294 K / Method: vapor diffusion, hanging drop Details: 18% polyethylene glycol (PEG) 4000, 0.1 M Magnesium acetate, 0.1 M Na-MES (pH 6.5), 0.05 M Potassium nitrate and 5% glycerol |
-Data collection
Diffraction | Mean temperature: 100 K | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Diffraction source | Source: ![]() ![]() ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Detector | Type: DECTRIS PILATUS 6M-F / Detector: PIXEL / Date: Feb 14, 2016 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation wavelength | Wavelength: 0.979 Å / Relative weight: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection | Resolution: 2.5→40 Å / Num. obs: 12543 / % possible obs: 99.5 % / Redundancy: 8.3 % / Rmerge(I) obs: 0.139 / Net I/σ(I): 6.2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection shell |
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Processing
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Refinement | Resolution: 2.516→39.91 Å / SU ML: 0.29 / Cross valid method: FREE R-VALUE / σ(F): 1.35 / Phase error: 28
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | ||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 165.26 Å2 / Biso mean: 65.9137 Å2 / Biso min: 27.85 Å2 | ||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 2.516→39.91 Å
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Refinement TLS params. | Method: refined / Origin x: -8.7325 Å / Origin y: -17.6226 Å / Origin z: -0.9824 Å
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Refinement TLS group |
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