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- PDB-6a0w: Crystal structure of lipase from Rhizopus microsporus var. chinensis -
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Open data
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Basic information
Entry | Database: PDB / ID: 6a0w | |||||||||
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Title | Crystal structure of lipase from Rhizopus microsporus var. chinensis | |||||||||
![]() | Lipase | |||||||||
![]() | HYDROLASE / Rhizopus microsporus var. chinensis / lipase / N-terminal polypeptide segment | |||||||||
Function / homology | Fungal lipase-like domain / Lipase (class 3) / lipid metabolic process / Alpha/Beta hydrolase fold / Lipase![]() | |||||||||
Biological species | ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Zhang, M. / Yu, X.W. / Xu, Y. / Huang, C.H. / Guo, R.T. | |||||||||
![]() | ![]() Title: Structural Basis by Which the N-Terminal Polypeptide Segment ofRhizopus chinensisLipase Regulates Its Substrate Binding Affinity. Authors: Zhang, M. / Yu, X.W. / Xu, Y. / Guo, R.T. / Swapna, G.V.T. / Szyperski, T. / Hunt, J.F. / Montelione, G.T. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 75.9 KB | Display | ![]() |
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PDB format | ![]() | 54.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 441.8 KB | Display | ![]() |
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Full document | ![]() | 443.9 KB | Display | |
Data in XML | ![]() | 14.5 KB | Display | |
Data in CIF | ![]() | 21.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1lgyS 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: 33363.523 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() | ||
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#2: Chemical | #3: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.25 Å3/Da / Density % sol: 62.19 % |
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Crystal grow | Temperature: 295 K / Method: vapor diffusion, sitting drop / pH: 8 Details: 25mM Tris pH 8.0, 150mM NaCl, 0.25M (NH4)2SO4, 25% PEG 4000 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Oct 30, 2012 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2→25 Å / Num. obs: 30238 / % possible obs: 100 % / Redundancy: 10.3 % / Rmerge(I) obs: 0.1 / Net I/σ(I): 25.72 |
Reflection shell | Resolution: 2→2.07 Å / Rmerge(I) obs: 0.5 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 1LGY Resolution: 2→25 Å / Cor.coef. Fo:Fc: 0.968 / Cor.coef. Fo:Fc free: 0.956 / SU B: 3.925 / SU ML: 0.102 / Cross valid method: THROUGHOUT / ESU R: 0.123 / ESU R Free: 0.124 / 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 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 38.055 Å2
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Refinement step | Cycle: 1 / Resolution: 2→25 Å
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Refine LS restraints |
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