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- PDB-1aoi: COMPLEX BETWEEN NUCLEOSOME CORE PARTICLE (H3,H4,H2A,H2B) AND 146 ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1aoi | ||||||
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Title | COMPLEX BETWEEN NUCLEOSOME CORE PARTICLE (H3,H4,H2A,H2B) AND 146 BP LONG DNA FRAGMENT | ||||||
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![]() | DNA BINDING PROTEIN/DNA / NUCLEOSOME / CHROMATIN / HISTONE / PROTEIN DNA INTERACTION / NUCLEOPROTEIN / SUPERCOILED DNA / DNA BINDING PROTEIN-DNA COMPLEX | ||||||
Function / homology | ![]() structural constituent of chromatin / nucleosome / nucleosome assembly / protein heterodimerization activity / DNA binding / nucleus Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Luger, K. / Maeder, A.W. / Richmond, R.K. / Sargent, D.F. / Richmond, T.J. | ||||||
![]() | ![]() Title: Crystal structure of the nucleosome core particle at 2.8 A resolution. Authors: Luger, K. / Mader, A.W. / Richmond, R.K. / Sargent, D.F. / Richmond, T.J. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 294 KB | Display | ![]() |
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PDB format | ![]() | 228.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 426.1 KB | Display | ![]() |
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Full document | ![]() | 463.2 KB | Display | |
Data in XML | ![]() | 23.6 KB | Display | |
Data in CIF | ![]() | 38.2 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
-DNA chain , 1 types, 2 molecules IJ
#1: DNA chain | Mass: 45053.855 Da / Num. of mol.: 2 / Source method: obtained synthetically |
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-Protein , 4 types, 8 molecules AEBFCGDH
#2: Protein | Mass: 13244.528 Da / Num. of mol.: 2 / Fragment: HISTONE H3 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #3: Protein | Mass: 9990.770 Da / Num. of mol.: 2 / Fragment: HISTONE H4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Description: SYNTHETIC GENE, OPTIMIZED CODON USAGE FOR ESCHERICHIA COLI; Production host: ![]() ![]() #4: Protein | Mass: 12639.772 Da / Num. of mol.: 2 / Fragment: HISTONE H2A Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #5: Protein | Mass: 11179.959 Da / Num. of mol.: 2 / Fragment: HISTONE H2B / Mutation: A7P Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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-Non-polymers , 2 types, 19 molecules ![](data/chem/img/MN.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/HOH.gif)
#6: Chemical | ChemComp-MN / #7: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.83 Å3/Da / Density % sol: 56.54 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | *PLUS Temperature: 20 ℃ / pH: 6 / Method: vapor diffusion | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 110 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Aug 15, 1995 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Resolution: 2.8→25 Å / Num. obs: 52487 / % possible obs: 99 % / Redundancy: 5.7 % / Rmerge(I) obs: 0.056 / Rsym value: 3.6 |
Reflection shell | Resolution: 2.8→2.85 Å / Redundancy: 6.3 % / Rmerge(I) obs: 0.132 / % possible all: 95 |
Reflection | *PLUS Num. measured all: 297397 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Solvent model: BULK SOLVENT MODEL USED | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.8→25 Å
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Refine LS restraints |
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Software | *PLUS Name: ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS σ(F): 3 / Rfactor obs: 0.224 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS |