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Open data
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Basic information
Entry | Database: PDB / ID: 3uhk | ||||||
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Title | HBI (K96R) without ligand bound | ||||||
![]() | Globin-1 | ||||||
![]() | OXYGEN STORAGE / OXYGEN TRANSPORT / allostery / oxygen binding | ||||||
Function / homology | ![]() oxygen carrier activity / oxygen binding / response to hypoxia / heme binding / identical protein binding / metal ion binding / cytoplasm Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Ren, Z. / Srajer, V. / Knapp, J.E. / Royer Jr., W.E. | ||||||
![]() | ![]() Title: Cooperative macromolecular device revealed by meta-analysis of static and time-resolved structures. Authors: Ren, Z. / Srajer, V. / Knapp, J.E. / Royer, W.E. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 121 KB | Display | ![]() |
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PDB format | ![]() | 97.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1.8 MB | Display | ![]() |
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Full document | ![]() | 1.8 MB | Display | |
Data in XML | ![]() | 26.1 KB | Display | |
Data in CIF | ![]() | 35.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 3qobC ![]() 3ugyC ![]() 3ugzC ![]() 3uh3C ![]() 3uh5C ![]() 3uh6C ![]() 3uh7C ![]() 3uhbC ![]() 3uhcC ![]() 3uhdC ![]() 3uheC ![]() 3uhgC ![]() 3uhhC ![]() 3uhiC ![]() 3uhnC ![]() 3uhqC ![]() 3uhrC ![]() 3uhsC ![]() 3uhtC ![]() 3uhuC ![]() 3uhvC ![]() 3uhwC ![]() 3uhxC ![]() 3uhyC ![]() 3uhzC ![]() 3ui0C ![]() 3sdhS S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 15995.317 Da / Num. of mol.: 4 / Mutation: K96R Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | ChemComp-HEM / #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.28 Å3/Da / Density % sol: 45.96 % |
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Crystal grow | Temperature: 296 K / Method: microbatch / pH: 7.5 Details: 2.1-2.3 M phosphate buffer, pH 7.5, MICROBATCH, temperature 296K |
-Data collection
Diffraction | Mean temperature: 298 K |
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Diffraction source | Source: ![]() |
Detector | Type: RIGAKU RAXIS IIC / Detector: IMAGE PLATE / Date: Sep 23, 2000 |
Radiation | Monochromator: YALE MIRRORS / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2→40 Å / Num. all: 39433 / Num. obs: 36200 / % possible obs: 91.8 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 2.9 % / Biso Wilson estimate: 13.6 Å2 / Rmerge(I) obs: 0.093 / Rsym value: 0.093 / Net I/σ(I): 10.4 |
Reflection shell | Resolution: 2→2.07 Å / Rmerge(I) obs: 0.278 / Mean I/σ(I) obs: 3.8 / Rsym value: 0.278 / % possible all: 94.9 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 3SDH Resolution: 2→30.91 Å / Rfactor Rfree error: 0.004 / Data cutoff high absF: 1474448.73 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber / Details: BULK SOLVENT MODEL USED
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 49.619 Å2 / ksol: 0.35 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 19.8 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2→30.91 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2→2.13 Å / Rfactor Rfree error: 0.011 / Total num. of bins used: 6
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Xplor file |
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