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- PDB-4aqf: X-ray crystallographic structure of Crimean-congo haemorrhagic fe... -
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Open data
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Basic information
Entry | Database: PDB / ID: 4aqf | ||||||
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Title | X-ray crystallographic structure of Crimean-congo haemorrhagic fever virus nucleoprotein | ||||||
![]() | (NUCLEOPROTEIN) x 2 | ||||||
![]() | VIRAL PROTEIN / NAIROVIRUS | ||||||
Function / homology | ![]() helical viral capsid / viral nucleocapsid / Hydrolases; Acting on ester bonds / hydrolase activity / ribonucleoprotein complex / RNA binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Wang, Y. / Dutta, S. / Karlberg, H. / Devignot, S. / Weber, F. / Hao, Q. / Tan, Y.J. / Mirazimi, A. / Kotaka, M. | ||||||
![]() | ![]() Title: Structure of Crimean-Congo Haemorraghic Fever Virus Nucleoprotein: Superhelical Homo-Oligomers and the Role of Caspase-3 Cleavage. Authors: Wang, Y. / Dutta, S. / Karlberg, H. / Devignot, S. / Weber, F. / Hao, Q. / Tan, Y.J. / Mirazimi, A. / Kotaka, M. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 584.1 KB | Display | ![]() |
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PDB format | ![]() | 488.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 481.8 KB | Display | ![]() |
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Full document | ![]() | 577 KB | Display | |
Data in XML | ![]() | 64.9 KB | Display | |
Data in CIF | ![]() | 87.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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3 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Noncrystallographic symmetry (NCS) | NCS oper:
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Components
#1: Protein | Mass: 54031.273 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Protein | | Mass: 54045.301 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #3: Chemical | ChemComp-SO4 / #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 4.55 Å3/Da / Density % sol: 72.96 % / Description: NONE |
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Crystal grow | pH: 6.5 Details: 0.1M MES, PH 6.5, 37% (V/V) PEG 200, 12% (V/V) PEG 400 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Nov 26, 2010 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 3.1→30 Å / Num. obs: 54514 / % possible obs: 99.9 % / Observed criterion σ(I): -1 / Redundancy: 5.5 % / Rmerge(I) obs: 0.08 / Net I/σ(I): 20.6 |
Reflection shell | Resolution: 3.1→3.21 Å / Redundancy: 5.6 % / Rmerge(I) obs: 0.88 / Mean I/σ(I) obs: 1.4 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: NONE Resolution: 3.1→29.24 Å / Cor.coef. Fo:Fc: 0.963 / Cor.coef. Fo:Fc free: 0.927 / SU B: 35.36 / SU ML: 0.273 / Cross valid method: THROUGHOUT / ESU R Free: 0.346 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS.
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 96.484 Å2
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Refinement step | Cycle: LAST / Resolution: 3.1→29.24 Å
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Refine LS restraints |
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