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- PDB-3p8k: Crystal Structure of a putative carbon-nitrogen family hydrolase ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 3p8k | ||||||
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Title | Crystal Structure of a putative carbon-nitrogen family hydrolase from Staphylococcus aureus | ||||||
![]() | Hydrolase, carbon-nitrogen family | ||||||
![]() | HYDROLASE | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Gordon, R.D. / Qiu, W. / Battaile, K. / Lam, K. / Soloveychik, M. / Benetteraj, D. / Romanov, V. / Pai, E.F. / Chirgadze, N.Y. | ||||||
![]() | ![]() Title: Crystal Structure of carbon-nitrogen family hydrolase from Staphylococcus aureus Authors: Qiu, W. / Gordon, R.D. / Battaile, K. / Lam, K. / Soloveychik, M. / Benetteraj, D. / Romanov, V. / Pai, E.F. / Chirgadze, N.Y. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 130.9 KB | Display | ![]() |
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PDB format | ![]() | 107.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 485.2 KB | Display | ![]() |
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Full document | ![]() | 491.3 KB | Display | |
Data in XML | ![]() | 28.2 KB | Display | |
Data in CIF | ![]() | 41.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Details | THE BIOLOGICAL ASSEMBLY IS UNKNOWN AS PER AUTHORS |
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Components
-Protein , 1 types, 2 molecules AB
#1: Protein | Mass: 32354.229 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Strain: COL / Gene: SACOL2021 / Production host: ![]() ![]() |
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-Non-polymers , 6 types, 566 molecules ![](data/chem/img/TRS.gif)
![](data/chem/img/CL.gif)
![](data/chem/img/PEG.gif)
![](data/chem/img/PGE.gif)
![](data/chem/img/GOL.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/CL.gif)
![](data/chem/img/PEG.gif)
![](data/chem/img/PGE.gif)
![](data/chem/img/GOL.gif)
![](data/chem/img/HOH.gif)
#2: Chemical | ChemComp-TRS / | ||||||||
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#3: Chemical | ChemComp-CL / #4: Chemical | #5: Chemical | #6: Chemical | ChemComp-GOL / | #7: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.18 Å3/Da / Density % sol: 43.49 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion / pH: 8.2 Details: 0.2M magnesium chloride, 0.1M TRIS, pH 8.2, 25% PEG 3350, VAPOR DIFFUSION, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 210 / Detector: CCD / Date: Aug 3, 2007 |
Radiation | Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9794 Å / Relative weight: 1 |
Reflection | Resolution: 1.7→20 Å / Num. all: 62691 / Num. obs: 61246 / % possible obs: 97.9 % / Redundancy: 25 % / Biso Wilson estimate: 20.07 Å2 / Rsym value: 0.0803 / Net I/σ(I): 18.1 |
Reflection shell | Resolution: 1.7→1.8 Å / Redundancy: 2.6 % / Mean I/σ(I) obs: 2.83 / Num. unique all: 7994 / Rsym value: 0.458 / % possible all: 85.5 |
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Processing
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Refinement | Method to determine structure: ![]()
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Displacement parameters | Biso mean: 23.55 Å2
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Refine analyze | Luzzati coordinate error obs: 0.24 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.7→19.96 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.7→1.74 Å / Total num. of bins used: 20
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