+Open data
-Basic information
Entry | Database: PDB / ID: 2c9r | ||||||
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Title | apo-H91F CopC | ||||||
Components | COPPER RESISTANCE PROTEIN C | ||||||
Keywords | ELECTRON TRANSPORT / COPPER TRANSPORT / COPPER PROTEINS / COPPER DISSOCIATION CONSTANTS / METAL-BINDING | ||||||
Function / homology | Function and homology information copper ion transport / response to copper ion / periplasmic space / copper ion binding / plasma membrane Similarity search - Function | ||||||
Biological species | PSEUDOMONAS SYRINGAE PV. TOMATO (bacteria) | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 2 Å | ||||||
Authors | Zhang, L. / Koay, M. / Maher, M.J. / Xiao, Z. / Wedd, A.G. | ||||||
Citation | Journal: J.Am.Chem.Soc. / Year: 2006 Title: Intermolecular Transfer of Copper Ions from the Copc Protein of Pseudomonas Syringae. Crystal Structures of Fully Loaded Cu(I)Cu(II) Forms. Authors: Zhang, L. / Koay, M. / Maher, M.J. / Xiao, Z. / Wedd, A.G. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2c9r.cif.gz | 34.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2c9r.ent.gz | 22.4 KB | Display | PDB format |
PDBx/mmJSON format | 2c9r.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 2c9r_validation.pdf.gz | 412.2 KB | Display | wwPDB validaton report |
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Full document | 2c9r_full_validation.pdf.gz | 412.8 KB | Display | |
Data in XML | 2c9r_validation.xml.gz | 6.6 KB | Display | |
Data in CIF | 2c9r_validation.cif.gz | 8.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/c9/2c9r ftp://data.pdbj.org/pub/pdb/validation_reports/c9/2c9r | HTTPS FTP |
-Related structure data
Related structure data | 2c9pC 2c9qSC C: citing same article (ref.) S: Starting model for refinement |
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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: 10556.105 Da / Num. of mol.: 1 / Mutation: YES Source method: isolated from a genetically manipulated source Source: (gene. exp.) PSEUDOMONAS SYRINGAE PV. TOMATO (bacteria) Production host: ESCHERICHIA COLI (E. coli) / References: UniProt: P12376 |
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#2: Chemical | ChemComp-NA / |
#3: Water | ChemComp-HOH / |
Compound details | FACILITATES COPPER RESISTANCE BY SEQUESTRATION OF COPPER IN THE PERIPLASM ALONG WITH THE COPPER- ...FACILITATE |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.66 Å3/Da / Density % sol: 53.37 % |
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Crystal grow | pH: 6.6 Details: 2.4 M SODIUM ACETATE, PH 7.0, 0.1 M BIS-TRIS PROPANE, PH 6.6, EDTA, 10 MM. |
-Data collection
Diffraction | Mean temperature: 293 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU RU200 / Wavelength: 1.5412 |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Details: OSMIC MIRRORS |
Radiation | Monochromator: NI FILTER / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5412 Å / Relative weight: 1 |
Reflection | Resolution: 2→30 Å / Num. obs: 8189 / % possible obs: 97.7 % / Observed criterion σ(I): 0 / Redundancy: 2.4 % / Rmerge(I) obs: 0.04 / Net I/σ(I): 23.8 |
Reflection shell | Resolution: 2→2.07 Å / Redundancy: 2.1 % / Rmerge(I) obs: 0.24 / Mean I/σ(I) obs: 3.7 / % possible all: 95.6 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 2C9Q Resolution: 2→26.74 Å / Cor.coef. Fo:Fc: 0.961 / Cor.coef. Fo:Fc free: 0.953 / SU B: 7.153 / SU ML: 0.102 / TLS residual ADP flag: LIKELY RESIDUAL / Cross valid method: THROUGHOUT / ESU R: 0.154 / ESU R Free: 0.142 / Stereochemistry target values: MAXIMUM LIKELIHOOD Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. DISORDERED REGIONS (RESIDUES 45-49) WERE OMMITTED FROM THE COORDINATES
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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: 42 Å2
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Refinement step | Cycle: LAST / Resolution: 2→26.74 Å
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Refine LS restraints |
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