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- PDB-2fj7: Crystal structure of Nucleosome Core Particle Containing a Poly (... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2fj7 | ||||||
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Title | Crystal structure of Nucleosome Core Particle Containing a Poly (dA.dT) Sequence Element | ||||||
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![]() | STRUCTURAL PROTEIN/DNA / Protein-DNA complex / narrow minor groove / STRUCTURAL PROTEIN-DNA COMPLEX | ||||||
Function / homology | ![]() structural constituent of chromatin / nucleosome / nucleosome assembly / protein heterodimerization activity / DNA binding / nucleoplasm / nucleus Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Bao, Y. / White, C.L. / Luger, K. | ||||||
![]() | ![]() Title: Nucleosome Core Particles Containing a Poly(dA.dT) Sequence Element Exhibit a Locally Distorted DNA Structure. Authors: Bao, Y. / White, C.L. / Luger, K. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 290.8 KB | Display | ![]() |
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PDB format | ![]() | 222.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | |
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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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Details | Histone octomer and the 147 bp DNA containing Poly (dA.dT) element were reconstituted to form NCP, which is the biological unit. |
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Components
-147 bp DNA containing 16 bp poly ... , 2 types, 2 molecules IJ
#1: DNA chain | Mass: 45369.137 Da / Num. of mol.: 1 / Source method: obtained synthetically |
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#2: DNA chain | Mass: 45350.035 Da / Num. of mol.: 1 / Source method: obtained synthetically |
-Protein , 4 types, 8 molecules AEBFCGDH
#3: Protein | Mass: 15303.930 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #4: Protein | Mass: 11263.231 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #5: Protein | Mass: 13978.241 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #6: Protein | Mass: 13848.097 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.52 Å3/Da / Density % sol: 51.26 % | ||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 292 K / Method: vapor diffusion, sitting drop / pH: 6 Details: 20 to 35 mM KCl, 34 to 48 mM MnCl2, and 5mM K-cacodylate pH 6.0 , VAPOR DIFFUSION, SITTING DROP, temperature 292K | ||||||||||||||||||||||||||||||||||||
Components of the solutions |
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-Data collection
Diffraction | Mean temperature: 103 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Date: Jun 12, 2003 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.1271 Å / Relative weight: 1 |
Reflection | Resolution: 3.2→50 Å / Num. obs: 34730 / % possible obs: 99.4 % / Redundancy: 7.1 % / Rmerge(I) obs: 0.067 / Χ2: 4.041 |
Reflection shell | Resolution: 3.2→3.31 Å / Redundancy: 6.8 % / Rmerge(I) obs: 0.226 / Num. unique all: 3428 / Χ2: 1.54 / % possible all: 99.8 |
-Phasing
Phasing MR | Cor.coef. Fo:Fc: 0.346 / Packing: 0.474
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Processing
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Refinement | Method to determine structure: ![]()
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Displacement parameters | Biso mean: 126.347 Å2 | ||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.2→50 Å
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Refine LS restraints |
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