+Open data
-Basic information
Entry | Database: PDB / ID: 4ee9 | ||||||
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Title | Crystal structure of the RBcel1 endo-1,4-glucanase | ||||||
Components | EndoglucanaseCellulase | ||||||
Keywords | HYDROLASE / GLYCOSYL HYDROLASE FAMILY 5 / CELLULASE / TIM BARREL / BETA-1 / 4-ENDOGLUCANASE | ||||||
Function / homology | Function and homology information | ||||||
Biological species | uncultured bacterium (environmental samples) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.381 Å | ||||||
Authors | Delsaute, M. / Berlemont, R. / Van Elder, D. / Galleni, M. / Bauvois, C. | ||||||
Citation | Journal: Acta Crystallogr.,Sect.F / Year: 2013 Title: Three-dimensional structure of RBcel1, a metagenome-derived psychrotolerant family GH5 endoglucanase. Authors: Delsaute, M. / Berlemont, R. / Dehareng, D. / Van Elder, D. / Galleni, M. / Bauvois, C. #1: Journal: ISME J / Year: 2009 Title: Insights into bacterial cellulose biosynthesis by functional metagenomics on Antarctic soil samples. Authors: Berlemont, R. / Delsaute, M. / Pipers, D. / D'Amico, S. / Feller, G. / Galleni, M. / Power, P. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4ee9.cif.gz | 163.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4ee9.ent.gz | 136.7 KB | Display | PDB format |
PDBx/mmJSON format | 4ee9.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ee/4ee9 ftp://data.pdbj.org/pub/pdb/validation_reports/ee/4ee9 | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 36382.051 Da / Num. of mol.: 1 / Fragment: UNP residues 31-351 Source method: isolated from a genetically manipulated source Source: (gene. exp.) uncultured bacterium (environmental samples) Plasmid: pET-22b / Production host: Escherichia coli (E. coli) / Strain (production host): BL21DE3 / References: UniProt: C1JI15, cellulase | ||
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#2: Chemical | #3: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.24 Å3/Da / Density % sol: 45.05 % |
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Crystal grow | Temperature: 292 K / Method: vapor diffusion, hanging drop / pH: 6 Details: 17% PEG 600, 0.1M Tris-HCl pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 292K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: BM30A / Wavelength: 0.9797 Å |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Oct 2, 2011 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9797 Å / Relative weight: 1 |
Reflection | Resolution: 1.38→30.05 Å / Num. all: 67174 / Num. obs: 67782 / % possible obs: 99 % / Observed criterion σ(I): -3 / Redundancy: 9.5 % / Biso Wilson estimate: 11.9 Å2 / Rmerge(I) obs: 0.061 / Net I/σ(I): 20.5 |
Reflection shell | Resolution: 1.38→1.46 Å / Redundancy: 8 % / Rmerge(I) obs: 0.64 / Mean I/σ(I) obs: 3.3 / Num. unique all: 9218 / % possible all: 94.5 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 1.381→30.05 Å / SU ML: 0.13 / σ(F): 1.99 / Phase error: 18.12 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL / Bsol: 62.101 Å2 / ksol: 0.376 e/Å3 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 1.381→30.05 Å
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Refine LS restraints |
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LS refinement shell |
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