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Yorodumi- PDB-3f7o: Crystal structure of Cuticle-Degrading Protease from Paecilomyces... -
+Open data
-Basic information
Entry | Database: PDB / ID: 3f7o | |||||||||
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Title | Crystal structure of Cuticle-Degrading Protease from Paecilomyces lilacinus (PL646) | |||||||||
Components |
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Keywords | HYDROLASE / Cuticle-Degrading Protease / Paecilomyces lilacinus / Protease / Serine protease | |||||||||
Function / homology | Function and homology information | |||||||||
Biological species | Purpureocillium lilacinum (fungus) synthetic construct (others) | |||||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 2.2 Å | |||||||||
Authors | Liang, L. / Lou, Z. / Meng, Z. / Rao, Z. / Zhang, K. | |||||||||
Citation | Journal: Faseb J. / Year: 2010 Title: The crystal structures of two cuticle-degrading proteases from nematophagous fungi and their contribution to infection against nematodes. Authors: Liang, L. / Meng, Z. / Ye, F. / Yang, J. / Liu, S. / Sun, Y. / Guo, Y. / Mi, Q. / Huang, X. / Zou, C. / Rao, Z. / Lou, Z. / Zhang, K.Q. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3f7o.cif.gz | 124.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3f7o.ent.gz | 95.8 KB | Display | PDB format |
PDBx/mmJSON format | 3f7o.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/f7/3f7o ftp://data.pdbj.org/pub/pdb/validation_reports/f7/3f7o | HTTPS FTP |
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-Related structure data
Related structure data | 3f7mC 3prkS C: citing same article (ref.) 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
#1: Protein | Mass: 28743.723 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Purpureocillium lilacinum (fungus) / Plasmid: pMD18-T / References: UniProt: Q01471 #2: Protein/peptide | Mass: 470.516 Da / Num. of mol.: 2 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others) #3: Chemical | #4: 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: 2.36 Å3/Da / Density % sol: 47.89 % |
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Crystal grow | Temperature: 289 K / Method: vapor diffusion, hanging drop / pH: 6 Details: 20% PEG 4000, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 289K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU MICROMAX-007 / Wavelength: 1.5418 Å |
Detector | Type: RIGAKU RAXIS IV++ / Detector: IMAGE PLATE / Date: Jul 5, 2007 / Details: osmic mirror |
Radiation | Monochromator: osmic mirror / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.1→50 Å / Num. obs: 31500 / % possible obs: 95.7 % / Observed criterion σ(F): 0 / Redundancy: 3.9 % / Rmerge(I) obs: 0.136 |
Reflection shell | Resolution: 2.1→2.18 Å / Redundancy: 2.8 % / Rmerge(I) obs: 0.564 / Num. unique all: 2806 / % possible all: 85.7 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 3PRK Resolution: 2.2→50 Å / σ(F): 0 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 2.2→50 Å
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Refine LS restraints |
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