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- PDB-4bhh: Crystal structure of tetramer of La Crosse virus nucleoprotein in... -
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Open data
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Basic information
Entry | Database: PDB / ID: 4bhh | ||||||
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Title | Crystal structure of tetramer of La Crosse virus nucleoprotein in complex with ssRNA | ||||||
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![]() | VIRAL PROTEIN/RNA / VIRAL PROTEIN-RNA COMPLEX / RNA-BINDING / GENOME PACKAGING | ||||||
Function / homology | ![]() helical viral capsid / symbiont-mediated suppression of host gene expression / viral nucleocapsid / ribonucleoprotein complex / RNA binding Similarity search - Function | ||||||
Biological species | ![]() SYNTHETIC CONSTRUCT (others) | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Reguera, J. / Malet, H. / Weber, F. / Cusack, S. | ||||||
![]() | ![]() Title: Structural Basis for Encapsidation of Genomic RNA by La Crosse Orthobunyavirus Nucleoprotein. Authors: Reguera, J. / Malet, H. / Weber, F. / Cusack, S. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 206.4 KB | Display | ![]() |
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PDB format | ![]() | 166.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 472.2 KB | Display | ![]() |
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Full document | ![]() | 480.3 KB | Display | |
Data in XML | ![]() | 32 KB | Display | |
Data in CIF | ![]() | 44.7 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 4bgpSC 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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Noncrystallographic symmetry (NCS) | NCS domain:
NCS domain segments: Component-ID: 1 / Refine code: 1
NCS ensembles :
NCS oper:
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Components
#1: Protein | Mass: 26620.275 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: RNA chain | | Mass: 13732.498 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) SYNTHETIC CONSTRUCT (others) Sequence details | EXTRA G AT N-TERMINUS AFTER HIS-TAG CLEAVAGE | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.78 Å3/Da / Density % sol: 55.8 % / Description: NONE |
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Crystal grow | pH: 9 Details: 0.1 M BICINE PH 9 AND 10% PEG 5K MME PROTEIN:RNA RATIO 4:1.2 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARMOSAIC 225 mm CCD / Detector: CCD / Date: Nov 21, 2012 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.8726 Å / Relative weight: 1 |
Reflection | Resolution: 3.4→50 Å / Num. obs: 18433 / % possible obs: 99.6 % / Observed criterion σ(I): 0 / Redundancy: 3.4 % / Rmerge(I) obs: 0.18 / Net I/σ(I): 6.89 |
Reflection shell | Resolution: 3.4→3.5 Å / Redundancy: 3.4 % / Rmerge(I) obs: 0.79 / Mean I/σ(I) obs: 1.89 / % possible all: 99.6 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 4BGP Resolution: 3.4→44.35 Å / Cor.coef. Fo:Fc: 0.938 / Cor.coef. Fo:Fc free: 0.894 / SU B: 33.466 / SU ML: 0.502 / Cross valid method: THROUGHOUT / ESU R Free: 0.621 / Stereochemistry target values: MAXIMUM LIKELIHOOD Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. U VALUES REFINED INDIVIDUALLY.
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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: 83.212 Å2
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Refinement step | Cycle: LAST / Resolution: 3.4→44.35 Å
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Refine LS restraints |
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