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- PDB-2w1n: cohesin and fibronectin type-III double module construct from the... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2w1n | ||||||
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Title | cohesin and fibronectin type-III double module construct from the Clostridium perfringens glycoside hydrolase GH84C | ||||||
![]() | O-GLCNACASE NAGJ | ||||||
![]() | HYDROLASE / HEXOSAMINIDASE / GLYCOSIDE HYDROLASE / FIBRONECTIN TYPE-III / CLOSTRIDIUM PERFRINGENS / BETA-N-ACETYLGLUCOSAMINIDASE / COHESIN / COILED COIL / GLYCOSIDASE | ||||||
Function / homology | ![]() glycoprotein metabolic process / protein O-GlcNAcase / : / : / [protein]-3-O-(N-acetyl-D-glucosaminyl)-L-serine/L-threonine O-N-acetyl-alpha-D-glucosaminase activity / protein deglycosylation / polysaccharide catabolic process / beta-N-acetylglucosaminidase activity / carbohydrate binding / carbohydrate metabolic process Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Ficko-Blean, E. / Gregg, K.J. / Adams, J.J. / Hehemann, J.H. / Czjzek, M. / Smith, S.J. / Boraston, A.B. | ||||||
![]() | ![]() Title: Portrait of an Enzyme: A Complete Structural Analysis of a Multi-Modular Beta-N-Acetylglucosaminidase from Clostridium Perfringens Authors: Ficko-Blean, E. / Gregg, K.J. / Adams, J.J. / Hehemann, J.H. / Czjzek, M. / Smith, S.J. / Boraston, A.B. | ||||||
History |
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Remark 700 | SHEET THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN ORDER TO REPRESENT THIS FEATURE IN ... SHEET THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, TWO SHEETS ARE DEFINED. |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 65.4 KB | Display | ![]() |
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PDB format | ![]() | 47 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 444.3 KB | Display | ![]() |
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Full document | ![]() | 448.2 KB | Display | |
Data in XML | ![]() | 14.5 KB | Display | |
Data in CIF | ![]() | 22 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2v5cC ![]() 2v5dC ![]() 2o4eS S: Starting model for refinement C: citing same article ( |
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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: 25923.957 Da / Num. of mol.: 1 Fragment: COHESIN AND FIBRONECTIN TYPE-III, RESIDUES 765-1001 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() References: UniProt: Q8XL08, UniProt: Q0TR53*PLUS, beta-N-acetylhexosaminidase |
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#2: Chemical | ChemComp-ACT / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.28 Å3/Da / Density % sol: 45.68 % / Description: NONE |
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Crystal grow | pH: 3.5 / Details: pH 3.5 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC CCD / Detector: CCD |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 1.8→73.72 Å / Num. obs: 27684 / % possible obs: 94 % / Observed criterion σ(I): 1.9 / Redundancy: 3.7 % / Rmerge(I) obs: 0.05 / Net I/σ(I): 30.2 |
Reflection shell | Resolution: 1.8→1.85 Å / Redundancy: 3.5 % / Rmerge(I) obs: 0.5 / Mean I/σ(I) obs: 1.9 / % possible all: 94.5 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 2O4E Resolution: 1.8→73.72 Å / Cor.coef. Fo:Fc: 0.949 / Cor.coef. Fo:Fc free: 0.911 / SU B: 4.232 / SU ML: 0.131 / Cross valid method: THROUGHOUT / ESU R: 0.162 / ESU R Free: 0.168 / 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: 1.4 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 29.93 Å2
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Refinement step | Cycle: LAST / Resolution: 1.8→73.72 Å
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Refine LS restraints |
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