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- PDB-4wxl: Crystal structure of a peptide deformylase from Haemophilus influ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 4wxl | ||||||
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Title | Crystal structure of a peptide deformylase from Haemophilus influenzae complex with Actinonin | ||||||
![]() | Peptide deformylase | ||||||
![]() | HYDROLASE / peptide deformylase | ||||||
Function / homology | ![]() peptide deformylase / peptide deformylase activity / translation / metal ion binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Kishor, C. / Addlagatta, A. | ||||||
![]() | ![]() Title: Crystal structure of a peptide deformylase from Haemophilus influenzae complex with Actinonin Authors: Kishor, C. / Addlagatta, A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 143.6 KB | Display | ![]() |
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PDB format | ![]() | 114.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1.6 MB | Display | ![]() |
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Full document | ![]() | 1.6 MB | Display | |
Data in XML | ![]() | 28.5 KB | Display | |
Data in CIF | ![]() | 37 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | |
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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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Components
#1: Protein | Mass: 19083.139 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Gene: def, NTHI0725 / Production host: ![]() ![]() #2: Chemical | ChemComp-NI / #3: Chemical | ChemComp-BB2 / #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.09 Å3/Da / Density % sol: 41.29 % |
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Crystal grow | Temperature: 297 K / Method: vapor diffusion, hanging drop / pH: 7 / Details: 20-25% PEG 3350, 0.1M HEPES pH 7.0, 2% glycerol / PH range: 6.5-7.5 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() |
Detector | Type: RIGAKU RAXIS IV++ / Detector: IMAGE PLATE / Date: May 19, 2014 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.54 Å / Relative weight: 1 |
Reflection | Resolution: 2.33→26.69 Å / Num. obs: 27056 / % possible obs: 99.63 % / Redundancy: 3.5 % / Net I/σ(I): 7.16 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 46.12 Å2
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Refinement step | Cycle: 1 / Resolution: 2.33→26.69 Å
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Refine LS restraints |
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