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Open data
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Basic information
Entry | Database: PDB / ID: 1rpu | ||||||
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Title | Crystal Structure of CIRV p19 bound to siRNA | ||||||
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![]() | RNA Binding Protein/RNA / RNAi / PROTEIN-RNA COMPLEX / RNA DOUBLE HELIX / RNA LENGTH RECOGNITION / RNA Binding Protein-RNA COMPLEX | ||||||
Function / homology | ![]() virion component / virus-mediated perturbation of host defense response / RNA binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Vargason, J.M. / Szittya, G. / Burgyan, J. / Hall, T.M.T. | ||||||
![]() | ![]() Title: Size selective recognition of siRNA by an RNA silencing suppressor Authors: Vargason, J.M. / Szittya, G. / Burgyan, J. / Hall, T.M.T. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 110.8 KB | Display | ![]() |
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PDB format | ![]() | 85.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 465.5 KB | Display | ![]() |
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Full document | ![]() | 474.9 KB | Display | |
Data in XML | ![]() | 16 KB | Display | |
Data in CIF | ![]() | 22.8 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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Unit cell |
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Components
#1: RNA chain | Mass: 6680.997 Da / Num. of mol.: 2 / Source method: obtained synthetically / Details: Synthesized by Dharmacon #2: Protein | Mass: 19358.373 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.37 Å3/Da / Density % sol: 48 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 4.6 Details: PEG MME 2000, ammonium sulfate, sodium acetate, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 277K | ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions |
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Crystal grow | *PLUS Temperature: 4 ℃ / Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 93 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARRESEARCH / Detector: CCD / Date: Apr 1, 2003 |
Radiation | Monochromator: Si 111 CHANNEL / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.5→50 Å / Num. all: 17767 / Num. obs: 17767 / % possible obs: 98.6 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Rsym value: 0.087 |
Reflection shell | Resolution: 2.5→2.59 Å / Rsym value: 0.381 / % possible all: 95.4 |
Reflection | *PLUS % possible obs: 98.8 % / Redundancy: 18.9 % / Num. measured all: 318939 / Rmerge(I) obs: 0.087 |
Reflection shell | *PLUS % possible obs: 95.4 % / Redundancy: 7.1 % / Rmerge(I) obs: 0.381 / Mean I/σ(I) obs: 2.7 |
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Processing
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Refinement | Method to determine structure: ![]()
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Refinement step | Cycle: LAST / Resolution: 2.5→50 Å
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Refine LS restraints |
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Refinement | *PLUS % reflection Rfree: 5 % | ||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||
Displacement parameters | *PLUS |