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- PDB-7r5g: FtrA-P19 from Rubrivivax gelatinosus in complex with copper and m... -
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Open data
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Basic information
Entry | Database: PDB / ID: 7r5g | ||||||
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Title | FtrA-P19 from Rubrivivax gelatinosus in complex with copper and magnesium (X2) | ||||||
![]() | FtrA-P19 | ||||||
![]() | TRANSPORT PROTEIN / Copper binding / iron transport | ||||||
Function / homology | COPPER (II) ION / DI(HYDROXYETHYL)ETHER![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() ![]() | ||||||
![]() | Morera, S. / Vigouroux, A. | ||||||
Funding support | ![]()
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![]() | ![]() Title: New insights into the mechanism of iron transport through the bacterial Ftr system present in pathogens. Authors: Steunou, A.S. / Vigouroux, A. / Aumont-Nicaise, M. / Plancqueel, S. / Boussac, A. / Ouchane, S. / Morera, S. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 138.8 KB | Display | ![]() |
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PDB format | ![]() | 107.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 428.4 KB | Display | ![]() |
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Full document | ![]() | 428.4 KB | Display | |
Data in XML | ![]() | 13.6 KB | Display | |
Data in CIF | ![]() | 18.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7r3pSC ![]() 7r3sC ![]() 7r4uC ![]() 7r4vC ![]() 7r4zC ![]() 7r5eC ![]() 7r5pC S: Starting model for refinement C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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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: 18189.561 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Production host: ![]() ![]() #2: Chemical | #3: Chemical | #4: Chemical | ChemComp-PEG / | #5: Water | ChemComp-HOH / | Has ligand of interest | N | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.03 Å3/Da / Density % sol: 39.49 % |
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Crystal grow | Temperature: 292 K / Method: vapor diffusion, hanging drop / pH: 8.5 / Details: 25% PEG 4K, 0.1 M Tris-HCl, 50 mM MgCl2 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 16M / Detector: PIXEL / Date: Nov 10, 2021 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.739 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→41.08 Å / Num. obs: 15041 / % possible obs: 99.7 % / Redundancy: 4.7 % / Biso Wilson estimate: 36.77 Å2 / CC1/2: 0.997 / Rmerge(I) obs: 0.067 / Net I/σ(I): 11 |
Reflection shell | Resolution: 2.2→2.23 Å / Rmerge(I) obs: 0.506 / Num. unique obs: 711 / CC1/2: 0.873 |
-Phasing
Phasing | Method: ![]() |
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Processing
Software |
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Refinement | Method to determine structure: ![]() Starting model: 7R3P Resolution: 2.2→41.08 Å / Cor.coef. Fo:Fc: 0.952 / Cor.coef. Fo:Fc free: 0.945 / SU R Cruickshank DPI: 0.273 / Cross valid method: THROUGHOUT / σ(F): 0 / SU R Blow DPI: 0.274 / SU Rfree Blow DPI: 0.176 / SU Rfree Cruickshank DPI: 0.178
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Displacement parameters | Biso max: 114.87 Å2 / Biso mean: 34.45 Å2 / Biso min: 12.52 Å2
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Refine analyze | Luzzati coordinate error obs: 0.23 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 2.2→41.08 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.2→2.22 Å / Rfactor Rfree error: 0 / Total num. of bins used: 38
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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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