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Yorodumi- PDB-3htw: Organophosphorus hydrolase from Deinococcus radiodurans with caco... -
+Open data
-Basic information
Entry | Database: PDB / ID: 3htw | ||||||
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Title | Organophosphorus hydrolase from Deinococcus radiodurans with cacodylate bound | ||||||
Components | Organophosphate hydrolase | ||||||
Keywords | HYDROLASE / organophosphorus hydrolase / phosphotriesterase / cacodylate | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Deinococcus radiodurans (radioresistant) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.9 Å | ||||||
Authors | Hawwa, R. / Larsen, S. / Ratia, K. / Mesecar, A. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2009 Title: Structure-based and random mutagenesis approaches increase the organophosphate-degrading activity of a phosphotriesterase homologue from Deinococcus radiodurans. Authors: Hawwa, R. / Larsen, S.D. / Ratia, K. / Mesecar, A.D. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3htw.cif.gz | 82 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3htw.ent.gz | 58.7 KB | Display | PDB format |
PDBx/mmJSON format | 3htw.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ht/3htw ftp://data.pdbj.org/pub/pdb/validation_reports/ht/3htw | HTTPS FTP |
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-Related structure data
Related structure data | 3gtfC 3gthC 3gtiC 3gtxC 3gu1C 3gu2C 3gu9C 2zc1S 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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Unit cell |
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Components on special symmetry positions |
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-Components
#1: Protein | Mass: 35506.801 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Deinococcus radiodurans (radioresistant) Production host: Escherichia coli (E. coli) / References: UniProt: Q9RVU2 | ||||
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#2: Chemical | ChemComp-CAC / | ||||
#3: Chemical | #4: Chemical | ChemComp-MG / #5: 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: 3.15 Å3/Da / Density % sol: 60.9 % |
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Crystal grow | Temperature: 289 K / Method: vapor diffusion, hanging drop / pH: 6.5 Details: 0.2 M magnesium acetate, 0.1 M sodium cacodylate, 30% MPD, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 289K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 22-BM / Wavelength: 1 Å |
Detector | Type: MARMOSAIC 225 mm CCD / Detector: CCD / Date: Aug 16, 2006 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.9→20 Å / Num. all: 36011 / Num. obs: 36011 / % possible obs: 100 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 |
Reflection shell | Resolution: 1.9→2.02 Å / % possible all: 99.5 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB Entry 2ZC1 Resolution: 1.9→20 Å / σ(F): 0
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Refinement step | Cycle: LAST / Resolution: 1.9→20 Å
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Refine LS restraints |
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