[English] 日本語
Yorodumi- PDB-6a2i: Architectural roles of Cren7 in folding crenarchaeal chromatin fi... -
+Open data
-Basic information
Entry | Database: PDB / ID: 6a2i | ||||||
---|---|---|---|---|---|---|---|
Title | Architectural roles of Cren7 in folding crenarchaeal chromatin filament | ||||||
Components |
| ||||||
Keywords | DNA BINDING PROTEIN/DNA / BETA-SHEET / DNA BINDING PROTEIN-DNA COMPLEX / Crenarchaeal chromatin protein | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Sulfolobus solfataricus (archaea) synthetic construct (others) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.4 Å | ||||||
Authors | Zhang, Z.F. / Zhao, M.H. / Chen, Y.Y. / Wang, L. / Dong, Y.H. / Gong, Y. / Huang, L. | ||||||
Citation | Journal: Mol. Microbiol. / Year: 2019 Title: Architectural roles of Cren7 in folding crenarchaeal chromatin filament. Authors: Zhang, Z. / Zhao, M. / Chen, Y. / Wang, L. / Liu, Q. / Dong, Y. / Gong, Y. / Huang, L. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 6a2i.cif.gz | 57.4 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb6a2i.ent.gz | 37.2 KB | Display | PDB format |
PDBx/mmJSON format | 6a2i.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 6a2i_validation.pdf.gz | 440 KB | Display | wwPDB validaton report |
---|---|---|---|---|
Full document | 6a2i_full_validation.pdf.gz | 440.9 KB | Display | |
Data in XML | 6a2i_validation.xml.gz | 7.1 KB | Display | |
Data in CIF | 6a2i_validation.cif.gz | 8.8 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/a2/6a2i ftp://data.pdbj.org/pub/pdb/validation_reports/a2/6a2i | HTTPS FTP |
-Related structure data
Related structure data | 6a2hC 3lwhS C: citing same article (ref.) S: Starting model for refinement |
---|---|
Similar structure data |
-Links
-Assembly
Deposited unit |
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
|
-Components
#1: Protein | Mass: 6677.914 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Sulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2) (archaea) Strain: ATCC 35092 / DSM 1617 / JCM 11322 / P2 / Gene: creN7, SSO6901 / Production host: Escherichia coli K-12 (bacteria) / References: UniProt: Q97ZE3 #2: DNA chain | Mass: 5515.591 Da / Num. of mol.: 2 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others) #3: Water | ChemComp-HOH / | |
---|
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
---|
-Sample preparation
Crystal | Density Matthews: 2.32 Å3/Da / Density % sol: 47.04 % |
---|---|
Crystal grow | Temperature: 289 K / Method: vapor diffusion, sitting drop / Details: 0.05M KH2PO4, 20% PEG 8000 |
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: SYNCHROTRON / Site: SSRF / Beamline: BL17U / Wavelength: 0.98 Å |
Detector | Type: ADSC QUANTUM 270 / Detector: CCD / Date: Dec 10, 2011 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.98 Å / Relative weight: 1 |
Reflection | Resolution: 2.4→50 Å / Num. obs: 9361 / % possible obs: 99.4 % / Redundancy: 6.7 % / Rmerge(I) obs: 0.056 / Net I/σ(I): 54.8 |
Reflection shell | Resolution: 2.4→2.45 Å / Rmerge(I) obs: 0.484 |
-Processing
Software |
| ||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 3LWH Resolution: 2.4→50 Å / SU ML: 0.42 / Cross valid method: FREE R-VALUE / σ(F): 1.34 / Phase error: 31.38
| ||||||||||||||||||||||||||||
Solvent computation | Shrinkage radii: 0.86 Å / VDW probe radii: 1.1 Å / Bsol: 39.742 Å2 / ksol: 0.299 e/Å3 | ||||||||||||||||||||||||||||
Displacement parameters |
| ||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.4→50 Å
| ||||||||||||||||||||||||||||
Refine LS restraints |
| ||||||||||||||||||||||||||||
LS refinement shell |
|