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- PDB-3lrr: Crystal structure of human RIG-I CTD bound to a 12 bp AU rich 5' ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 3lrr | ||||||
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Title | Crystal structure of human RIG-I CTD bound to a 12 bp AU rich 5' ppp dsRNA | ||||||
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![]() | HYDROLASE/RNA / ![]() ![]() ![]() ![]() ![]() | ||||||
Function / homology | ![]() regulation of type III interferon production / RIG-I signaling pathway / positive regulation of myeloid dendritic cell cytokine production / OAS antiviral response / detection of virus / NF-kB activation through FADD/RIP-1 pathway mediated by caspase-8 and -10 / positive regulation of response to cytokine stimulus / positive regulation of granulocyte macrophage colony-stimulating factor production / RSV-host interactions / ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Li, P. | ||||||
![]() | ![]() Title: The Structural Basis of 5' Triphosphate Double-Stranded RNA Recognition by RIG-I C-Terminal Domain. Authors: Lu, C. / Xu, H. / Ranjith-Kumar, C.T. / Brooks, M.T. / Hou, T.Y. / Hu, F. / Herr, A.B. / Strong, R.K. / Kao, C.C. / Li, P. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 78.2 KB | Display | ![]() |
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PDB format | ![]() | 56.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 3lrnC ![]() 2qfbS C: citing same article ( S: Starting model for refinement |
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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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Details | Authors state that the asymmetric unit contains a 2:1 complex of human RIG-I CTD bound to a 12 bp dsRNA |
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Components
#1: Protein | Mass: 14203.516 Da / Num. of mol.: 2 / Fragment: RIG-I CTD (UNP residues 803 to 923) Source method: isolated from a genetically manipulated source Details: C-terminal Histag / Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() References: UniProt: O95786, ![]() #2: RNA chain | Mass: 3927.232 Da / Num. of mol.: 2 / Source method: obtained synthetically / Details: In vitro transcribed RNA with T7 RNA polymerase #3: Chemical | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.05 Å3/Da / Density % sol: 59.68 % |
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Crystal grow![]() | Temperature: 277 K / Method: vapor diffusion, hanging drop / pH: 6.5 Details: PEG 3,350 (15%) plus ammonium sulfate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K |
-Data collection
Diffraction | Mean temperature: 174 K |
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Diffraction source | Source: ![]() |
Detector | Type: RIGAKU RAXIS IV++ / Detector: IMAGE PLATE / Date: Sep 1, 2009 / Details: Osmic |
Radiation | Monochromator: Osmic / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 2.15→50 Å / Num. all: 23670 / Num. obs: 22092 / % possible obs: 93.5 % / Redundancy: 6.5 % / Rmerge(I) obs: 0.071 / Rsym value: 0.071 / Net I/σ(I): 36 |
Reflection shell | Resolution: 2.15→2.23 Å / Redundancy: 6.3 % / Rmerge(I) obs: 0.457 / Mean I/σ(I) obs: 4.4 / Num. unique all: 2119 / Rsym value: 0.457 / % possible all: 90.4 |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: Free RIG-I CTD, pdb ID. 2QFB chain A Resolution: 2.15→30.19 Å / Cross valid method: Rfree / σ(F): 0 / σ(I): 0 / Stereochemistry target values: Engh & Huber Details: Refined with CNS 1.1 again twinned data. Twin fraction, 0.478
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Refinement step | Cycle: LAST / Resolution: 2.15→30.19 Å
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Refine LS restraints |
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LS refinement shell | Highest resolution: 2.15 Å
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