+Open data
-Basic information
Entry | Database: PDB / ID: 6d57 | ||||||
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Title | Campylobacter jejuni ferric uptake regulator S1 metalated | ||||||
Components | Ferric uptake regulation protein | ||||||
Keywords | METAL TRANSPORT / Fur / ferric uptake regulator / Campylobacter jejuni / metalloregulator | ||||||
Function / homology | Function and homology information DNA-binding transcription factor activity / DNA binding / metal ion binding / cytoplasm Similarity search - Function | ||||||
Biological species | Campylobacter jejuni (Campylobacter) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / Resolution: 1.81 Å | ||||||
Authors | Sarvan, S. / Brunzelle, J.S. / Couture, J.F. | ||||||
Funding support | Canada, 1items
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Citation | Journal: Sci Rep / Year: 2018 Title: Functional insights into the interplay between DNA interaction and metal coordination in ferric uptake regulators. Authors: Sarvan, S. / Charih, F. / Askoura, M. / Butcher, J. / Brunzelle, J.S. / Stintzi, A. / Couture, J.F. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6d57.cif.gz | 139.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6d57.ent.gz | 114.2 KB | Display | PDB format |
PDBx/mmJSON format | 6d57.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/d5/6d57 ftp://data.pdbj.org/pub/pdb/validation_reports/d5/6d57 | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 18411.359 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Campylobacter jejuni (Campylobacter) Gene: fur, A0L11_08850, A8118_04250, AJ878_05735, AJY51_02300, AJY53_01130, AJY73_06030, B5Y32_02790, B5Z71_06080, BD28_01920, BKM79_01965, CRM98_01485 Production host: Escherichia coli (E. coli) / References: UniProt: A0A1E7PHN7 #2: Chemical | #3: Chemical | ChemComp-FMT / #4: Chemical | #5: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.53 Å3/Da / Density % sol: 51.42 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, sitting drop Details: 0.1 M Bis-Tris, pH 5.5, 0.25 M magnesium formate, 25% PEG3350 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 17-ID / Wavelength: 1 Å |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Feb 8, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.81→69.68 Å / Num. obs: 34641 / % possible obs: 100 % / Redundancy: 3.4 % / Biso Wilson estimate: 20.49 Å2 / Net I/σ(I): 5.3 |
Reflection shell | Resolution: 1.81→1.9 Å |
-Processing
Software |
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Refinement | Resolution: 1.81→69.68 Å / Cor.coef. Fo:Fc: 0.946 / Cor.coef. Fo:Fc free: 0.916 / SU R Cruickshank DPI: 0.116 / Cross valid method: THROUGHOUT / σ(F): 0 / SU R Blow DPI: 0.128 / SU Rfree Blow DPI: 0.126 / SU Rfree Cruickshank DPI: 0.118
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Displacement parameters | Biso mean: 27.61 Å2
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Refine analyze | Luzzati coordinate error obs: 0.209 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.81→69.68 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.81→1.87 Å / Total num. of bins used: 17
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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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