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Yorodumi- PDB-3mui: Enzyme-Substrate interactions of IXT6, the intracellular xylanase... -
+Open data
-Basic information
Entry | Database: PDB / ID: 3mui | |||||||||
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Title | Enzyme-Substrate interactions of IXT6, the intracellular xylanase of G. stearothermophilus. | |||||||||
Components | Xylanase | |||||||||
Keywords | HYDROLASE / xylanase / nucleophile | |||||||||
Function / homology | Function and homology information endo-1,4-beta-xylanase activity / endo-1,4-beta-xylanase / xylan catabolic process Similarity search - Function | |||||||||
Biological species | Geobacillus stearothermophilus (bacteria) | |||||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / Resolution: 1.8 Å | |||||||||
Authors | Solomon, V. / Zolotnitsky, G. / Alhadeff, R. / Shoham, Y. / Shoham, G. | |||||||||
Citation | Journal: To be Published Title: Enzyme-Substrate interactions of IXT6, the intracellular xylanase of G. stearothermophilus. Authors: Solomon, V. / Zolotnitsky, G. / Alhadeff, R. / Shoham, Y. / Shoham, G. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3mui.cif.gz | 159.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3mui.ent.gz | 124.5 KB | Display | PDB format |
PDBx/mmJSON format | 3mui.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 3mui_validation.pdf.gz | 1.5 MB | Display | wwPDB validaton report |
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Full document | 3mui_full_validation.pdf.gz | 1.5 MB | Display | |
Data in XML | 3mui_validation.xml.gz | 30.1 KB | Display | |
Data in CIF | 3mui_validation.cif.gz | 43 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/mu/3mui ftp://data.pdbj.org/pub/pdb/validation_reports/mu/3mui | HTTPS FTP |
-Related structure data
Related structure data | 3ms8C 3msdC 3msgC 3muaC 2q8xS S: Starting model for refinement C: citing same article (ref.) |
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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
#1: Protein | Mass: 38637.816 Da / Num. of mol.: 2 / Mutation: E241A Source method: isolated from a genetically manipulated source Source: (gene. exp.) Geobacillus stearothermophilus (bacteria) Strain: T-6 / Gene: xynA2 / Plasmid: pET9d / Production host: Escherichia coli (E. coli) / Strain (production host): BL21 (DE3) References: UniProt: Q3YBZ9, UniProt: Q09LY9*PLUS, endo-1,4-beta-xylanase #2: Polysaccharide | #3: Chemical | #4: Chemical | ChemComp-GOL / #5: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 3.45 Å3/Da / Density % sol: 64.3 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 6.5 Details: 0.1M sodium cacodylate pH 6.5, 1.9M soduim acetate, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: ID14-4 / Wavelength: 0.939 Å |
Detector | Type: ADSC QUANTUM 4r / Detector: CCD / Date: Dec 5, 2002 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.939 Å / Relative weight: 1 |
Reflection | Resolution: 1.8→19.97 Å / Num. obs: 91101 / % possible obs: 93.9 % / Redundancy: 2.98 % / Biso Wilson estimate: 20.8 Å2 / Rsym value: 0.056 / Net I/σ(I): 15.2 |
Reflection shell | Resolution: 1.8→1.83 Å / Redundancy: 2.74 % / Mean I/σ(I) obs: 2.12 / Num. unique all: 3971 / Rsym value: 0.412 / % possible all: 81.9 |
-Processing
Software |
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Refinement | Starting model: PDB ENTRY 2Q8X Resolution: 1.8→19.97 Å / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Displacement parameters | Biso mean: 30.8 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 1.8→19.97 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.8→1.83 Å / Rfactor Rfree error: 0.012
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