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- PDB-7pyy: Structure of LPMO (expressed in E.coli) with cellotriose at 5.05x... -
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Open data
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Basic information
Entry | Database: PDB / ID: 7pyy | |||||||||
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Title | Structure of LPMO (expressed in E.coli) with cellotriose at 5.05x10^5 Gy | |||||||||
![]() | Auxiliary activity 9 | |||||||||
![]() | OXIDOREDUCTASE / lytic polysaccharide monooxygenase / metalloenzyme / copper / auxiliary activity | |||||||||
Function / homology | ![]() hydrolase activity, acting on glycosyl bonds / cellulase / cellulose catabolic process / extracellular region / metal ion binding Similarity search - Function | |||||||||
Biological species | ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Tandrup, T. / Muderspach, S.J. / Banerjee, S. / Ipsen, J.O. / Rollan, C.H. / Norholm, M.H.H. / Johansen, K.S. / Lo Leggio, L. | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Changes in active-site geometry on X-ray photoreduction of a lytic polysaccharide monooxygenase active-site copper and saccharide binding. Authors: Tandrup, T. / Muderspach, S.J. / Banerjee, S. / Santoni, G. / Ipsen, J.O. / Hernandez-Rollan, C. / Norholm, M.H.H. / Johansen, K.S. / Meilleur, F. / Lo Leggio, L. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 68.8 KB | Display | ![]() |
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PDB format | ![]() | 48 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 7pqrSC ![]() 7pxiC ![]() 7pxjC ![]() 7pxkC ![]() 7pxlC ![]() 7pxmC ![]() 7pxnC ![]() 7pxrC ![]() 7pxsC ![]() 7pxtC ![]() 7pxuC ![]() 7pxvC ![]() 7pxwC ![]() 7pydC ![]() 7pyeC ![]() 7pyfC ![]() 7pygC ![]() 7pyhC ![]() 7pyiC ![]() 7pylC ![]() 7pymC ![]() 7pynC ![]() 7pyoC ![]() 7pypC ![]() 7pyqC ![]() 7pyuC ![]() 7pywC ![]() 7pyxC ![]() 7pyzC ![]() 7pz0C ![]() 7pz3C ![]() 7pz4C ![]() 7pz5C ![]() 7pz6C ![]() 7pz7C ![]() 7pz8C S: Starting model for refinement C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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1 |
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Unit cell |
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Components
-Protein / Sugars , 2 types, 2 molecules A
#1: Protein | Mass: 25259.832 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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#2: Polysaccharide | beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-beta-D-glucopyranose |
-Non-polymers , 4 types, 274 molecules ![](data/chem/img/CU.gif)
![](data/chem/img/CL.gif)
![](data/chem/img/SO4.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/CL.gif)
![](data/chem/img/SO4.gif)
![](data/chem/img/HOH.gif)
#3: Chemical | ChemComp-CU / | ||
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#4: Chemical | ChemComp-CL / | ||
#5: Chemical | #6: Water | ChemComp-HOH / | |
-Details
Has ligand of interest | Y |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.57 Å3/Da / Density % sol: 52.13 % |
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Crystal grow | Temperature: 278 K / Method: batch mode / pH: 4.5 Details: 2.3 M ammonium sulfate, 0.1 M sodium acetate pH 4.5 under silicon:paraffin oil in a 3:2 ratio |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER2 X 16M / Detector: PIXEL / Date: Sep 3, 2020 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.0332 Å / Relative weight: 1 |
Reflection | Resolution: 1.2→50 Å / Num. obs: 141907 / % possible obs: 90.2 % / Redundancy: 1.72 % / CC1/2: 0.99 / Net I/σ(I): 8.78 |
Reflection shell | Resolution: 1.2→1.23 Å / Num. unique obs: 10137 / CC1/2: 0.92 |
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Processing
Software |
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Refinement | Method to determine structure: ![]() Starting model: 7PQR Resolution: 1.2→44.6 Å / Cor.coef. Fo:Fc: 0.979 / Cor.coef. Fo:Fc free: 0.977 / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: MAXIMUM LIKELIHOOD
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Solvent computation | Solvent model: MASK | ||||||||||||||||||||||||
Displacement parameters | Biso max: 48.92 Å2 / Biso mean: 12.598 Å2 / Biso min: 7.8 Å2 | ||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 1.2→44.6 Å
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