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Yorodumi- PDB-1g43: CRYSTAL STRUCTURE OF A FAMILY IIIA CBD FROM CLOSTRIDIUM CELLULOLYTICUM -
+Open data
-Basic information
Entry | Database: PDB / ID: 1g43 | ||||||
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Title | CRYSTAL STRUCTURE OF A FAMILY IIIA CBD FROM CLOSTRIDIUM CELLULOLYTICUM | ||||||
Components | SCAFFOLDING PROTEINScaffold protein | ||||||
Keywords | STRUCTURAL PROTEIN / beta-sandwich | ||||||
Function / homology | Function and homology information hydrolase activity, acting on glycosyl bonds / cellulose binding / cellulose catabolic process / extracellular region / metal ion binding Similarity search - Function | ||||||
Biological species | Clostridium cellulolyticum (bacteria) | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 2.2 Å | ||||||
Authors | Shimon, L.J.W. / Pages, S. / Belaich, A. / Belaich, J.-P. / Bayer, E.A. / Lamed, R. / Shoham, Y. / Frolow, F. | ||||||
Citation | Journal: Acta Crystallogr.,Sect.D / Year: 2000 Title: Structure of a family IIIa scaffoldin CBD from the cellulosome of Clostridium cellulolyticum at 2.2 A resolution. Authors: Shimon, L.J. / Pages, S. / Belaich, A. / Belaich, J.P. / Bayer, E.A. / Lamed, R. / Shoham, Y. / Frolow, F. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1g43.cif.gz | 47.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1g43.ent.gz | 32.5 KB | Display | PDB format |
PDBx/mmJSON format | 1g43.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/g4/1g43 ftp://data.pdbj.org/pub/pdb/validation_reports/g4/1g43 | HTTPS FTP |
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-Related structure data
Related structure data | 1nbcS S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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2 |
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Unit cell |
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Components on special symmetry positions |
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-Components
#1: Protein | Mass: 17156.625 Da / Num. of mol.: 1 / Fragment: RESIDUE 28-187 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Clostridium cellulolyticum (bacteria) / Production host: Escherichia coli (E. coli) / References: UniProt: Q45996 | ||
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#2: Chemical | ChemComp-CA / | ||
#3: Chemical | #4: 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: 2.25 Å3/Da / Density % sol: 45.43 % | |||||||||||||||||||||||||
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Crystal grow | Temperature: 295 K / Method: vapor diffusion, hanging drop / pH: 6.5 Details: PEG 8000, zinc acetate, cacodylate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 295.0K | |||||||||||||||||||||||||
Crystal grow | *PLUS Details: drop consists of equal amounts of protein and reservoir solutions | |||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 298 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU FR-C / Wavelength: 1.5418 Å |
Detector | Type: RIGAKU RAXIS IIC / Detector: IMAGE PLATE / Date: May 4, 1998 / Details: mirrors |
Radiation | Monochromator: Yale mirrors / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→19.69 Å / Num. all: 8466 / Num. obs: 8466 / % possible obs: 94.3 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 4.8 % / Biso Wilson estimate: 15 Å2 / Rmerge(I) obs: 0.073 / Net I/σ(I): 25.9 |
Reflection shell | Resolution: 2.2→2.34 Å / Redundancy: 4.8 % / Rmerge(I) obs: 0.337 / % possible all: 78.7 |
Reflection | *PLUS Num. measured all: 41312 |
Reflection shell | *PLUS % possible obs: 76.6 % |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB Entry 1nbc Resolution: 2.2→19.69 Å / Cross valid method: THROUGHOUT / σ(F): 0 / σ(I): 0 / Stereochemistry target values: Engh & Huber
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Displacement parameters | Biso mean: 29.4 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.2→19.69 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.2→2.34 Å / Rfactor Rfree error: 0.026
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Software | *PLUS Name: CNS / Version: 1 / Classification: refinement | |||||||||||||||||||||
Refine LS restraints | *PLUS
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