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- PDB-4c0n: Crystal structure of non symbiotic plant hemoglobin AHb3 (GLB3) f... -
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Open data
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Basic information
Entry | Database: PDB / ID: 4c0n | ||||||
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Title | Crystal structure of non symbiotic plant hemoglobin AHb3 (GLB3) from Arabidopsis thaliana | ||||||
![]() | 2-ON-2 HEMOGLOBIN | ||||||
![]() | OXYGEN TRANSPORT / 2-OVER-2 FOLD | ||||||
Function / homology | ![]() response to auxin / oxygen transport / oxygen carrier activity / oxygen binding / response to hypoxia / heme binding / metal ion binding Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Hough, M.A. / Reeder, B.J. | ||||||
![]() | ![]() Title: The Structure of a Class 3 Nonsymbiotic Plant Haemoglobin from Arabidopsis Thaliana Reveals a Novel N-Terminal Helical Extension Authors: Reeder, B.J. / Hough, M.A. | ||||||
History |
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Remark 650 | HELIX DETERMINATION METHOD: AUTHOR PROVIDED. |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 50 KB | Display | ![]() |
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PDB format | ![]() | 36.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 848.2 KB | Display | ![]() |
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Full document | ![]() | 849.5 KB | Display | |
Data in XML | ![]() | 10 KB | Display | |
Data in CIF | ![]() | 13.4 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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1 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 20223.594 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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#2: Chemical | ChemComp-CL / |
#3: Chemical | ChemComp-OH / |
#4: Chemical | ChemComp-HEM / |
#5: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.88 Å3/Da / Density % sol: 68.3 % / Description: NONE |
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Crystal grow | pH: 8.2 / Details: 1.6 M AMMONIUM SULFATE, 0.1 M TRIS PH 8.2 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Jan 31, 2013 / Details: MIRRORS |
Radiation | Monochromator: SI DOUBLE CRYSTAL / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9686 Å / Relative weight: 1 |
Reflection | Resolution: 1.77→50.3 Å / Num. obs: 31454 / % possible obs: 99 % / Observed criterion σ(I): -10 / Redundancy: 5.4 % / Rmerge(I) obs: 0.05 / Net I/σ(I): 16.4 |
Reflection shell | Resolution: 1.77→1.81 Å / Redundancy: 5.5 % / Rmerge(I) obs: 0.77 / Mean I/σ(I) obs: 1.9 / % possible all: 99.9 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: NONE Resolution: 1.77→50.42 Å / Cor.coef. Fo:Fc: 0.962 / Cor.coef. Fo:Fc free: 0.954 / SU B: 1.765 / SU ML: 0.055 / Cross valid method: THROUGHOUT / ESU R: 0.082 / ESU R Free: 0.082 / Stereochemistry target values: MAXIMUM LIKELIHOOD Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. U VALUES REFINED INDIVIDUALLY.
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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: 26.274 Å2
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Refinement step | Cycle: LAST / Resolution: 1.77→50.42 Å
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Refine LS restraints |
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