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- PDB-6wpx: Crystal structure of Bacillus licheniformis lipase BlEst2 in prop... -
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Open data
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Basic information
Entry | Database: PDB / ID: 6wpx | |||||||||
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Title | Crystal structure of Bacillus licheniformis lipase BlEst2 in propetide form | |||||||||
![]() | BlEst2 | |||||||||
![]() | HYDROLASE / esterase / lipase / propetide | |||||||||
Function / homology | Alpha/Beta hydrolase fold / IODIDE ION / Lipase![]() | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Nakamura, A.M. / Godoy, A.S. / Kadowaki, M.A.S. / Polikarpov, I. | |||||||||
Funding support | ![]()
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![]() | ![]() Title: The first structure of Bacillus licheniformis lipase BlEst2 in its propeptide and mature form revealing molecular details of inhibition by its C-terminal domains Authors: Nakamura, A.M. / Godoy, A.S. / Kadowaki, M.A.S. / Polikarpov, I. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 366.7 KB | Display | ![]() |
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PDB format | ![]() | 299.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 436.1 KB | Display | ![]() |
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Full document | ![]() | 443.1 KB | Display | |
Data in XML | ![]() | 36.3 KB | Display | |
Data in CIF | ![]() | 53 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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1 | ![]()
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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 53740.566 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Chemical | ChemComp-IOD / #3: Water | ChemComp-HOH / | Has ligand of interest | N | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.03 Å3/Da / Density % sol: 39.37 % |
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Crystal grow | Temperature: 291 K / Method: vapor diffusion Details: 0.2 M calcium chloride, 0.1 M Tris pH 8.0 and 28% (w/v) polyethylene glycol (PEG) |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 2M / Detector: PIXEL / Date: May 4, 2016 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.459 Å / Relative weight: 1 |
Reflection | Resolution: 2→20.16 Å / Num. obs: 59739 / % possible obs: 99 % / Redundancy: 6.9 % / CC1/2: 0.99 / Rpim(I) all: 0.077 / Net I/σ(I): 12.88 |
Reflection shell | Resolution: 2→2.07 Å / Num. unique obs: 5862 / CC1/2: 0.61 / Rpim(I) all: 0.618 |
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Processing
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Refinement | Method to determine structure: ![]()
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Displacement parameters | Biso max: 100.67 Å2 / Biso mean: 29.07 Å2 / Biso min: 7.6 Å2
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Refine analyze | Luzzati coordinate error obs: 0.25 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 2→20.16 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2→2.05 Å / Rfactor Rfree error: 0 / Total num. of bins used: 20
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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