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Open data
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Basic information
Entry | Database: PDB / ID: 1yoy | ||||||
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Title | Predicted coding region AF1432 from Archaeoglobus Fulgidus | ||||||
![]() | hypothetical protein AF1432 | ||||||
![]() | STRUCTURAL GENOMICS / UNKNOWN FUNCTION / AF1432 / APC5594 / MIDWEST CENTER FOR STRUCTURAL GENOMICS / MCSG / PROTEIN STRUCTURE INITIATIVE / PSI | ||||||
Function / homology | ![]() 5'-deoxynucleotidase / 5'-deoxynucleotidase activity / metal ion binding / cytoplasm Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Midwest Center for Structural Genomics (MCSG) / Lunin, V.V. / Savchenko, A. / Joachimiak, A. | ||||||
![]() | ![]() Title: The crystal structure of predicted coding region AF1432 from Archaeoglobus Fulgidus Authors: Lunin, V.V. / Evdokimova, E. / Kudritskaya, M. / Joachimiak, A. / Edwards, A. / Savchenko, A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 43.8 KB | Display | ![]() |
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PDB format | ![]() | 30.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Similar structure data | |
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Other databases |
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Links
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Assembly
Deposited unit | ![]()
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2 | ![]()
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Unit cell |
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Details | The second part of the biological assembly is generated by symmetry operator (y, x, -z) |
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Components
#1: Protein | Mass: 20015.971 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.4 Å3/Da / Density % sol: 49 % |
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Crystal grow | Temperature: 297 K / Method: vapor diffusion, hanging drop / pH: 5.2 Details: 2.5M (NH4)2SO4, 0.1M t-Na citrate, pH 5.2, VAPOR DIFFUSION, HANGING DROP, temperature 297K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: CUSTOM-MADE / Detector: CCD / Date: Dec 18, 2004 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97945 Å / Relative weight: 1 |
Reflection | Resolution: 2→50 Å / Num. all: 13228 / Num. obs: 13058 / % possible obs: 95.2 % / Observed criterion σ(F): 2 / Observed criterion σ(I): 2 |
Reflection shell | Resolution: 2→2.07 Å / % possible all: 65.1 |
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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: 30.091 Å2
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Refinement step | Cycle: LAST / Resolution: 2→19.46 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2→2.05 Å / Total num. of bins used: 20
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