+Open data
-Basic information
Entry | Database: PDB / ID: 1iej | ||||||
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Title | OVOTRANSFERRIN, N-TERMINAL LOBE, HOLO FORM, AT 1.65 A RESOLUTION | ||||||
Components | OVOTRANSFERRIN | ||||||
Keywords | METAL BINDING PROTEIN / transferrin / iron / ovotransferrin | ||||||
Function / homology | Function and homology information extracellular sequestering of iron ion / organomineral extracellular matrix / antimicrobial humoral response / intracellular sequestering of iron ion / ferric iron binding / acute-phase response / recycling endosome / antibacterial humoral response / iron ion transport / response to lipopolysaccharide ...extracellular sequestering of iron ion / organomineral extracellular matrix / antimicrobial humoral response / intracellular sequestering of iron ion / ferric iron binding / acute-phase response / recycling endosome / antibacterial humoral response / iron ion transport / response to lipopolysaccharide / early endosome / response to xenobiotic stimulus / iron ion binding / extracellular space / plasma membrane Similarity search - Function | ||||||
Biological species | Gallus gallus (chicken) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 1.65 Å | ||||||
Authors | Mizutani, K. / Mikami, B. / Hirose, M. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 2001 Title: Domain closure mechanism in transferrins: new viewpoints about the hinge structure and motion as deduced from high resolution crystal structures of ovotransferrin N-lobe. Authors: Mizutani, K. / Mikami, B. / Hirose, M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1iej.cif.gz | 78.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1iej.ent.gz | 62.4 KB | Display | PDB format |
PDBx/mmJSON format | 1iej.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ie/1iej ftp://data.pdbj.org/pub/pdb/validation_reports/ie/1iej | 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
#1: Protein | Mass: 36542.336 Da / Num. of mol.: 1 / Fragment: N-TERMINAL DOMAIN(RESIDUES 20-351) / Source method: isolated from a natural source / Source: (natural) Gallus gallus (chicken) / References: UniProt: P02789 |
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#2: Chemical | ChemComp-FE / |
#3: Chemical | ChemComp-CO3 / |
#4: 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: 40.81 % | ||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 5.9 Details: PEG6000, pH 5.9, VAPOR DIFFUSION, HANGING DROP, temperature 293K | ||||||||||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Details: used to seed, Dewan, J.C., (1993) Biochemistry, 32, 11963. | ||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 293 K |
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Diffraction source | Source: ROTATING ANODE / Type: MACSCIENCE / Wavelength: 1.54 Å |
Detector | Type: SIEMENS HI-STAR / Detector: AREA DETECTOR / Date: Sep 12, 1996 |
Radiation | Monochromator: Cu / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.54 Å / Relative weight: 1 |
Reflection | Highest resolution: 1.62 Å / Num. all: 135942 / Num. obs: 35322 / % possible obs: 89 % / Rmerge(I) obs: 0.058 |
Reflection | *PLUS % possible obs: 89 % / Num. measured all: 135942 |
-Processing
Software |
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Refinement | Resolution: 1.65→10 Å / σ(F): 2
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Refinement step | Cycle: LAST / Resolution: 1.65→10 Å
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Refine LS restraints |
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Software | *PLUS Name: X-PLOR / Version: 3.1 / Classification: refinement | ||||||||||||||||||||
Refinement | *PLUS Lowest resolution: 10 Å / σ(F): 2 / % reflection Rfree: 10 % / Rfactor obs: 0.173 | ||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||
Displacement parameters | *PLUS Biso mean: 18.1 Å2 | ||||||||||||||||||||
Refine LS restraints | *PLUS
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