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Open data
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Basic information
Entry | Database: PDB / ID: 6i5b | ||||||
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Title | Crystal Structure of Outer Cell Wall Cytochrome OcwA | ||||||
![]() | Uncharacterized protein | ||||||
![]() | OXIDOREDUCTASE / multiheme c-type cytochromes / surface exposed proteins / Gram-positive bacteria / Thermincola potens JR / extracellular electron transfer | ||||||
Function / homology | ![]() nitrite reductase (cytochrome; ammonia-forming) / nitrite reductase (cytochrome, ammonia-forming) activity / : / periplasmic space / metal ion binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Hermann, B. / Einsle, O. | ||||||
![]() | ![]() Title: How Thermophilic Gram-Positive Organisms Perform Extracellular Electron Transfer: Characterization of the Cell Surface Terminal Reductase OcwA. Authors: Costa, N.L. / Hermann, B. / Fourmond, V. / Faustino, M.M. / Teixeira, M. / Einsle, O. / Paquete, C.M. / Louro, R.O. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 220.1 KB | Display | ![]() |
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PDB format | ![]() | 184.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 6.3 MB | Display | ![]() |
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Full document | ![]() | 6.4 MB | Display | |
Data in XML | ![]() | 39.3 KB | Display | |
Data in CIF | ![]() | 54 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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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Noncrystallographic symmetry (NCS) | NCS domain:
NCS domain segments:
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Components
-Protein , 1 types, 2 molecules AB
#1: Protein | Mass: 56886.113 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Details: 9 heme c groups, one Mg and one Cl Source: (gene. exp.) ![]() Strain: JR / Gene: TherJR_2595 / Production host: ![]() ![]() |
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-Non-polymers , 5 types, 191 molecules ![](data/chem/img/MG.gif)
![](data/chem/img/CL.gif)
![](data/chem/img/BU3.gif)
![](data/chem/img/HEC.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/CL.gif)
![](data/chem/img/BU3.gif)
![](data/chem/img/HEC.gif)
![](data/chem/img/HOH.gif)
#2: Chemical | ChemComp-MG / | ||
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#3: Chemical | ChemComp-CL / | ||
#4: Chemical | ChemComp-BU3 / ( | ||
#5: Chemical | ChemComp-HEC / #6: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.39 Å3/Da / Density % sol: 48.63 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / pH: 7.5 Details: 25% PEG 3350, 100 mM magnesium chloride, 100 mM HEPES/ NaOH |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 2M / Detector: PIXEL / Date: Apr 8, 2016 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→80.94 Å / Num. obs: 53356 / % possible obs: 98.1 % / Redundancy: 3.5 % / CC1/2: 0.998 / Rmerge(I) obs: 0.075 / Rpim(I) all: 0.047 / Net I/σ(I): 11 |
Reflection shell | Resolution: 2.2→2.27 Å / Redundancy: 3.4 % / Rmerge(I) obs: 1.29 / Num. unique obs: 4603 / CC1/2: 0.4 / % possible all: 97.3 |
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Processing
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Refinement | Method to determine structure: ![]()
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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: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 58.672 Å2
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Refinement step | Cycle: 1 / Resolution: 2.2→80.94 Å
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Refine LS restraints |
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