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- PDB-7zjb: Structural and functional characterization of the bacterial lytic... -
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Open data
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Basic information
Entry | Database: PDB / ID: 7zjb | ||||||||||||
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Title | Structural and functional characterization of the bacterial lytic polysaccharide Monooxygenase ScLPMO10D | ||||||||||||
![]() | Putative secreted cellulose-binding protein | ||||||||||||
![]() | OXIDOREDUCTASE / LPMO / AA10 | ||||||||||||
Function / homology | Cellulose/chitin-binding protein, N-terminal / Lytic polysaccharide mono-oxygenase, cellulose-degrading / Immunoglobulin E-set / membrane / COPPER (II) ION / Putative secreted cellulose-binding protein![]() | ||||||||||||
Biological species | Streptomyces coelicolor A3 | ||||||||||||
Method | ![]() ![]() ![]() | ||||||||||||
![]() | Votvik, A.K. / Rohr, A.K. / Stepnov, A.A. / Bissaro, B. / Sorlie, M. / Eijsink, V.G.H. / Forsberg, Z. | ||||||||||||
Funding support | ![]() ![]()
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![]() | ![]() Title: Structural and functional characterization of the catalytic domain of a cell-wall anchored bacterial lytic polysaccharide monooxygenase from Streptomyces coelicolor. Authors: Votvik, A.K. / Rohr, A.K. / Bissaro, B. / Stepnov, A.A. / Sorlie, M. / Eijsink, V.G.H. / Forsberg, Z. | ||||||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 97.4 KB | Display | ![]() |
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PDB format | ![]() | 72.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 844.7 KB | Display | ![]() |
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Full document | ![]() | 846.2 KB | Display | |
Data in XML | ![]() | 11.8 KB | Display | |
Data in CIF | ![]() | 17.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6if7S S: Starting model for refinement |
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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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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 19167.244 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Strain: ATCC BAA-471 / A3(2) / M145 / Gene: SCO1734 / Production host: ![]() ![]() | ||||||
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#2: Chemical | ChemComp-CU / | ||||||
#3: Chemical | ChemComp-SO4 / #4: Chemical | ChemComp-NA / | #5: Water | ChemComp-HOH / | Has ligand of interest | Y | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.32 Å3/Da / Density % sol: 62.92 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 6.5 Details: 2.0 M ammonium sulfate, 0.1 M sodium cacodylate pH 6.5 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Feb 20, 2016 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97702 Å / Relative weight: 1 |
Reflection | Resolution: 1.37→48.57 Å / Num. obs: 55188 / % possible obs: 99.8 % / Redundancy: 12.6 % / CC1/2: 1 / Rmerge(I) obs: 0.05 / Net I/σ(I): 22.5 |
Reflection shell | Resolution: 1.37→1.42 Å / Redundancy: 12.7 % / Rmerge(I) obs: 1.369 / Mean I/σ(I) obs: 1.6 / Num. unique obs: 5301 / CC1/2: 0.789 / % possible all: 99.6 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 6IF7 Resolution: 1.37→54.81 Å / Cor.coef. Fo:Fc: 0.981 / Cor.coef. Fo:Fc free: 0.977 / SU B: 1.426 / SU ML: 0.025 / Cross valid method: THROUGHOUT / ESU R: 0.038 / ESU R Free: 0.038 / 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: 23.296 Å2
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Refinement step | Cycle: 1 / Resolution: 1.37→54.81 Å
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Refine LS restraints |
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