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- PDB-4rd7: The crystal structure of a Cupin 2 conserved barrel domain protei... -
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Open data
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Basic information
Entry | Database: PDB / ID: 4rd7 | ||||||
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Title | The crystal structure of a Cupin 2 conserved barrel domain protein from Salinispora arenicola CNS-205 | ||||||
![]() | Cupin 2 conserved barrel domain protein | ||||||
![]() | UNKNOWN FUNCTION / structural genomics / PSI-Biology / protein structure initiative / midwest center for structural genomics / MCSG / Enzyme Discovery for Natural Product Biosynthesis / NatPro | ||||||
Function / homology | Cupin 2, conserved barrel / Cupin domain / RmlC-like cupin domain superfamily / Jelly Rolls / RmlC-like jelly roll fold / Jelly Rolls / Sandwich / Mainly Beta / Cupin 2 conserved barrel domain protein![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Tan, K. / Gu, M. / Clancy, S. / Phillips Jr., G.N. / Joachimiak, A. / Midwest Center for Structural Genomics (MCSG) / Enzyme Discovery for Natural Product Biosynthesis (NatPro) | ||||||
![]() | ![]() Title: The crystal structure of a Cupin 2 conserved barrel domain protein from Salinispora arenicola CNS-205 Authors: Tan, K. / Gu, M. / Clancy, S. / Phillips Jr., G.N. / Joachimiak, 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 | ![]() | 62.4 KB | Display | ![]() |
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PDB format | ![]() | 50 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 302.7 KB | Display | ![]() |
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Full document | ![]() | 303.3 KB | Display | |
Data in XML | ![]() | 8.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-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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1 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 14571.407 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() | ||||
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#2: Chemical | ChemComp-SO4 / #3: Chemical | ChemComp-GOL / | #4: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.17 Å3/Da / Density % sol: 43.43 % |
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Crystal grow | Temperature: 289 K / Method: vapor diffusion, sitting drop / pH: 4.5 Details: 1.6M Ammonium Sulfate, 0.1M MES:NaOH, 10% (v/v) Dioxane, pH 4.5, VAPOR DIFFUSION, SITTING DROP, temperature 289K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Aug 25, 2014 / Details: mirror |
Radiation | Monochromator: Si 111 crystal / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97915 Å / Relative weight: 1 |
Reflection | Resolution: 1.57→36.5 Å / Num. all: 18841 / Num. obs: 18841 / % possible obs: 100 % / Observed criterion σ(F): 0 / Observed criterion σ(I): -5 / Redundancy: 14 % / Biso Wilson estimate: 13.76 Å2 / Rmerge(I) obs: 0.124 / Net I/σ(I): 47.2 |
Reflection shell | Resolution: 1.57→1.6 Å / Redundancy: 7.9 % / Rmerge(I) obs: 0.572 / Mean I/σ(I) obs: 3.9 / Num. unique all: 891 / % possible all: 99.8 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.571→36.497 Å
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Refine LS restraints |
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LS refinement shell |
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