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- PDB-2xmk: Visualising the Metal-binding Versatility of Copper Trafficking S... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2xmk | ||||||
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Title | Visualising the Metal-binding Versatility of Copper Trafficking Sites: Atx1 side-to-side (anaerobic) | ||||||
![]() | SSR2857 PROTEIN | ||||||
![]() | CHAPERONE / COPPER HOMEOSTASIS / P-TYPE ATPASES / METAL TRANSPORT | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Badarau, A. / Firbank, S.J. / McCarthy, A.A. / Banfield, M.J. / Dennison, C. | ||||||
![]() | ![]() Title: Visualizing the Metal-Binding Versatility of Copper Trafficking Sites . Authors: Badarau, A. / Firbank, S.J. / Mccarthy, A.A. / Banfield, M.J. / Dennison, C. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 70.3 KB | Display | ![]() |
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PDB format | ![]() | 51.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 412.4 KB | Display | ![]() |
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Full document | ![]() | 412.1 KB | Display | |
Data in XML | ![]() | 9.8 KB | Display | |
Data in CIF | ![]() | 14 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2xmjSC ![]() 2xmmC ![]() 2xmtC ![]() 2xmuC ![]() 2xmvC ![]() 2xmwC C: citing same article ( S: Starting model for refinement |
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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 on special symmetry positions |
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Components
#1: Protein | Mass: 6690.513 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Details: 2 COPPER IONS PER MONOMER / Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Chemical | #3: Chemical | ChemComp-NA / | #4: Chemical | ChemComp-CU / #5: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.7 Å3/Da / Density % sol: 54 % / Description: NONE |
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Crystal grow | pH: 6.5 Details: 24 % (W/V) PEG 8000, 200 MM SODIUM ACETATE, 100 MM SODIUM CACODYLATE PH 6.5 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC CCD / Detector: CCD |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.98 Å / Relative weight: 1 |
Reflection | Resolution: 1.35→53.22 Å / Num. obs: 29653 / % possible obs: 97.4 % / Observed criterion σ(I): 0 / Redundancy: 4.9 % / Biso Wilson estimate: 10 Å2 / Rmerge(I) obs: 0.08 / Net I/σ(I): 15.4 |
Reflection shell | Resolution: 1.35→1.42 Å / Redundancy: 4.4 % / Rmerge(I) obs: 0.29 / Mean I/σ(I) obs: 5.1 / % possible all: 95.9 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 2XMJ Resolution: 1.35→53.22 Å / Cor.coef. Fo:Fc: 0.971 / Cor.coef. Fo:Fc free: 0.968 / SU B: 1.251 / SU ML: 0.024 / Cross valid method: THROUGHOUT / ESU R: 0.046 / ESU R Free: 0.043 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS.
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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: BABINET MODEL WITH MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 8.829 Å2
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Refinement step | Cycle: LAST / Resolution: 1.35→53.22 Å
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Refine LS restraints |
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