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Yorodumi- PDB-4nzh: A. fumigatus flavin-dependent ornithine monooxygenase R279A mutant -
+Open data
-Basic information
Entry | Database: PDB / ID: 4nzh | ||||||
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Title | A. fumigatus flavin-dependent ornithine monooxygenase R279A mutant | ||||||
Components | L-ornithine N5 monooxygenase | ||||||
Keywords | OXIDOREDUCTASE | ||||||
Function / homology | Function and homology information L-ornithine N5-monooxygenase [NAD(P)H] / ferrichrome biosynthetic process / ornithine N5-monooxygenase activity / siderophore-dependent iron import into cell / ergosterol biosynthetic process / cellular response to iron ion starvation / N,N-dimethylaniline monooxygenase activity / siderophore biosynthetic process / secondary metabolite biosynthetic process / NADP+ binding ...L-ornithine N5-monooxygenase [NAD(P)H] / ferrichrome biosynthetic process / ornithine N5-monooxygenase activity / siderophore-dependent iron import into cell / ergosterol biosynthetic process / cellular response to iron ion starvation / N,N-dimethylaniline monooxygenase activity / siderophore biosynthetic process / secondary metabolite biosynthetic process / NADP+ binding / monooxygenase activity / intracellular iron ion homeostasis / iron ion binding Similarity search - Function | ||||||
Biological species | Aspergillus fumigatus (mold) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2 Å | ||||||
Authors | Robinson, R. / Franceschini, S. / Sobrado, P. | ||||||
Citation | Journal: To be Published Title: A. fumigatus flavin-dependent ornithine monooxygenase R279A mutant Authors: Robinson, R. / Franceschini, S. / Sobrado, P. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4nzh.cif.gz | 194.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4nzh.ent.gz | 155.1 KB | Display | PDB format |
PDBx/mmJSON format | 4nzh.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/nz/4nzh ftp://data.pdbj.org/pub/pdb/validation_reports/nz/4nzh | HTTPS FTP |
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-Related structure data
Related structure data | |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Components on special symmetry positions |
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-Components
#1: Protein | Mass: 56873.562 Da / Num. of mol.: 1 / Mutation: R279A Source method: isolated from a genetically manipulated source Source: (gene. exp.) Aspergillus fumigatus (mold) / Gene: sidA / Plasmid: pET15a / Production host: Escherichia coli (E. coli) / References: UniProt: Q5SE95, UniProt: E9QYP0*PLUS | ||
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#2: Chemical | ChemComp-FAD / | ||
#3: Chemical | ChemComp-ORN / | ||
#4: Chemical | ChemComp-GOL / #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: 2.08 Å3/Da / Density % sol: 40.95 % |
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Crystal grow | Temperature: 278 K / Method: vapor diffusion / pH: 6.6 Details: 1.6 M ammonium sulfate, 0.1 M HEPES, 2% dioxane, pH 6.6, VAPOR DIFFUSION, temperature 278K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: NSLS / Beamline: X29A / Wavelength: 1 Å |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Jan 16, 2012 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2→50 Å / Num. all: 32887 / Num. obs: 32825 / % possible obs: 99 % / Rmerge(I) obs: 0.093 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT / Resolution: 2→27.16 Å / Cor.coef. Fo:Fc: 0.954 / Cor.coef. Fo:Fc free: 0.935 / SU B: 8.964 / SU ML: 0.136 / Cross valid method: THROUGHOUT / ESU R: 0.208 / ESU R Free: 0.174 / Stereochemistry target values: MAXIMUM LIKELIHOOD
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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: 37.368 Å2
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Refinement step | Cycle: LAST / Resolution: 2→27.16 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.992→2.043 Å / Total num. of bins used: 20
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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