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Open data
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Basic information
Entry | Database: PDB / ID: 5gpl | ||||||
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Title | Crystal structure of Ccp1 | ||||||
![]() | Putative nucleosome assembly protein C36B7.08c | ||||||
![]() | CHAPERONE / Ccp1 dimer / nucleosome assembly protein | ||||||
Function / homology | ![]() CENP-A eviction from euchromatin / CENP-A containing chromatin / histone chaperone activity / chromosome, centromeric region / nucleosome assembly / histone binding / chromatin binding / chromatin / nucleoplasm / nucleus Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Yin, F. / Gao, F. / Chen, Y. | ||||||
![]() | ![]() Title: Ccp1 Homodimer Mediates Chromatin Integrity by Antagonizing CENP-A Loading Authors: Dong, Q. / Yin, F.X. / Gao, F. / Shen, Y. / Zhang, F. / Li, Y. / He, H. / Gonzalez, M. / Yang, J. / Zhang, S. / Su, M. / Chen, Y.H. / Li, F. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 196.8 KB | Display | ![]() |
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PDB format | ![]() | 156.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 5gpkSC 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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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 32355.252 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Strain: 972h- / Gene: SPBC36B7.08c Production host: ![]() References: UniProt: Q9HGN2 #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.3 Å3/Da / Density % sol: 46.6 % |
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Crystal grow | Temperature: 289 K / Method: vapor diffusion, hanging drop / pH: 4 Details: 100mM sodiam manolate pH4.0 200mM NH4NO3 18% PEG 3,350 15% EG |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() |
Detector | Type: RAYONIX MX-225 / Detector: CCD / Date: Jun 1, 2014 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97892 Å / Relative weight: 1 |
Reflection | Resolution: 2.1→50 Å / Num. obs: 36027 / % possible obs: 99.6 % / Redundancy: 14.4 % / Net I/σ(I): 23.8 |
Reflection shell | Resolution: 2.1→2.18 Å |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 5GPK Resolution: 2.1→38.756 Å / SU ML: 0.2 / Cross valid method: FREE R-VALUE / σ(F): 1.34 / Phase error: 21.63
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.1→38.756 Å
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Refine LS restraints |
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LS refinement shell |
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Refinement TLS params. | Method: refined / Origin x: 107.9225 Å / Origin y: 12.0658 Å / Origin z: 7.6996 Å
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Refinement TLS group | Selection details: all |