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Yorodumi- PDB-2bv9: HOW FAMILY 26 GLYCOSIDE HYDROLASES ORCHESTRATE CATALYSIS ON DIFFE... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2bv9 | ||||||
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Title | HOW FAMILY 26 GLYCOSIDE HYDROLASES ORCHESTRATE CATALYSIS ON DIFFERENT POLYSACCHARIDES. STRUCTURE AND ACTIVITY OF A CLOSTRIDIUM THERMOCELLUM LICHENASE, CtLIC26A | ||||||
Components | ENDOGLUCANASE H | ||||||
Keywords | HYDROLASE / BETA-1 4 BETA-1 3 GLUCANASE / GLYCOSIDE HYDROLASE FAMILY 26 | ||||||
Function / homology | Function and homology information | ||||||
Biological species | CLOSTRIDIUM THERMOCELLUM (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 1.5 Å | ||||||
Authors | Taylor, E.J. / Goyal, A. / Guerreiro, C.I.P.D. / Prates, J.A.M. / Money, V.A. / Ferry, N. / Morland, C. / Planas, A. / Macdonald, J.A. / Stick, R.V. ...Taylor, E.J. / Goyal, A. / Guerreiro, C.I.P.D. / Prates, J.A.M. / Money, V.A. / Ferry, N. / Morland, C. / Planas, A. / Macdonald, J.A. / Stick, R.V. / Gilbert, H.J. / Fontes, C.M.G.A. / Davies, G.J. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 2005 Title: How Family 26 Glycoside Hydrolases Orchestrate Catalysis on Different Polysaccharides: Structure and Activity of a Clostridium Thermocellum Lichenase, Ctlic26A. Authors: Taylor, E.J. / Goyal, A. / Guerreiro, C.I.P.D. / Prates, J.A.M. / Money, V.A. / Ferry, N. / Morland, C. / Planas, A. / Macdonald, J.A. / Stick, R.V. / Gilbert, H.J. / Fontes, C.M.G.A. / Davies, G.J. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2bv9.cif.gz | 77.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2bv9.ent.gz | 61.5 KB | Display | PDB format |
PDBx/mmJSON format | 2bv9.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/bv/2bv9 ftp://data.pdbj.org/pub/pdb/validation_reports/bv/2bv9 | HTTPS FTP |
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-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 33188.633 Da / Num. of mol.: 1 / Fragment: CATALYTIC DOMAIN, RESIDUES 26-304 Source method: isolated from a genetically manipulated source Source: (gene. exp.) CLOSTRIDIUM THERMOCELLUM (bacteria) / Strain: F1/YS / Plasmid: PCF2 / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21(DE3) / References: UniProt: P16218, cellulase |
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#2: Water | ChemComp-HOH / |
Sequence details | HOW FAMILY 26 GLYCOSIDE HYDROLASES ORCHESTRATE CATALYSIS ON DIFFERENT POLYSACCHARIDES. STRUCTURE ...HOW FAMILY 26 GLYCOSIDE HYDROLASES |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 2 |
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-Sample preparation
Crystal | Density Matthews: 2.4 Å3/Da / Density % sol: 48 % |
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Crystal grow | Details: 0.3-1.2M NA FORMATE, 0.1M NA CACODYLATE BUFFERED AT PH 6.5 AND 5-20% PEG 4K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: ID14-1 / Wavelength: 0.934 |
Detector | Type: ADSC CCD / Detector: CCD / Date: Jul 4, 2003 / Details: RADII TOROIDAL MIRROR |
Radiation | Monochromator: GE(220) CRYSTAL / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.934 Å / Relative weight: 1 |
Reflection | Resolution: 1.5→36 Å / Num. obs: 51705 / % possible obs: 96.3 % / Redundancy: 5.4 % / Rmerge(I) obs: 0.05 / Net I/σ(I): 7.5 |
Reflection shell | Resolution: 1.5→1.58 Å / Redundancy: 5.3 % / Rmerge(I) obs: 0.1 / Mean I/σ(I) obs: 14.5 / % possible all: 96.3 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 1.5→36.51 Å / Cor.coef. Fo:Fc: 0.974 / Cor.coef. Fo:Fc free: 0.966 / SU B: 0.853 / SU ML: 0.033 / Cross valid method: THROUGHOUT / ESU R: 0.057 / ESU R Free: 0.059 / 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: BABINET MODEL WITH MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 9.39 Å2
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Refinement step | Cycle: LAST / Resolution: 1.5→36.51 Å
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Refine LS restraints |
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