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- PDB-5emo: Structure of the star domain of T-STAR in complex with AUUAAA RNA -
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Open data
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Basic information
Entry | Database: PDB / ID: 5emo | ||||||
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Title | Structure of the star domain of T-STAR in complex with AUUAAA RNA | ||||||
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![]() | RNA BINDING PROTEIN / Protein - RNA complexes STAR protein Alternative splicing KH domain | ||||||
Function / homology | ![]() PTK6 Regulates Proteins Involved in RNA Processing / regulation of alternative mRNA splicing, via spliceosome / mRNA processing / SH3 domain binding / protein domain specific binding / mRNA binding / protein-containing complex / RNA binding / nucleoplasm / identical protein binding / nucleus Similarity search - Function | ||||||
Biological species | ![]() synthetic construct (others) | ||||||
Method | ![]() ![]() ![]() ![]() | ||||||
![]() | Dominguez, C. / Feracci, M. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Structural basis of RNA recognition and dimerization by the STAR proteins T-STAR and Sam68. Authors: Feracci, M. / Foot, J.N. / Grellscheid, S.N. / Danilenko, M. / Stehle, R. / Gonchar, O. / Kang, H.S. / Dalgliesh, C. / Meyer, N.H. / Liu, Y. / Lahat, A. / Sattler, M. / Eperon, I.C. / ...Authors: Feracci, M. / Foot, J.N. / Grellscheid, S.N. / Danilenko, M. / Stehle, R. / Gonchar, O. / Kang, H.S. / Dalgliesh, C. / Meyer, N.H. / Liu, Y. / Lahat, A. / Sattler, M. / Eperon, I.C. / Elliott, D.J. / Dominguez, C. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 77.2 KB | Display | ![]() |
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PDB format | ![]() | 57.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 464.2 KB | Display | ![]() |
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Full document | ![]() | 466.7 KB | Display | |
Data in XML | ![]() | 12.5 KB | Display | |
Data in CIF | ![]() | 16.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5el3SC ![]() 5elrC ![]() 5elsC ![]() 5eltC 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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Components
#1: Protein | Mass: 21156.258 Da / Num. of mol.: 2 / Fragment: RNA binding protein Source method: isolated from a genetically manipulated source Details: N-terminus GA residues from tag. / Source: (gene. exp.) ![]() ![]() ![]() #2: RNA chain | Mass: 1884.197 Da / Num. of mol.: 2 / Source method: obtained synthetically / Source: (synth.) synthetic construct (others) |
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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, sitting drop / pH: 7.5 / Details: NaCl, Na-HEPES, PEG 4000 |
-Data collection
Diffraction | Mean temperature: 100 K | |||||||||||||||||||||||||||
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Diffraction source | Source: ![]() ![]() ![]() | |||||||||||||||||||||||||||
Detector | Type: DECTRIS PILATUS3 6M / Detector: PIXEL / Date: Feb 10, 2014 | |||||||||||||||||||||||||||
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||||||||||||||||||||
Radiation wavelength | Wavelength: 0.97934 Å / Relative weight: 1 | |||||||||||||||||||||||||||
Reflection | Resolution: 3.03→28.51 Å / Num. obs: 7908 / % possible obs: 94.8 % / Redundancy: 2.6 % / Biso Wilson estimate: 55.46 Å2 / CC1/2: 0.988 / Rmerge(I) obs: 0.114 / Rpim(I) all: 0.081 / Net I/σ(I): 8.1 / Num. measured all: 20367 | |||||||||||||||||||||||||||
Reflection shell | Diffraction-ID: 1 / Rejects: _
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-Phasing
Phasing | Method: ![]() |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 5EL3 Resolution: 3.03→28.508 Å / SU ML: 0.44 / Cross valid method: THROUGHOUT / σ(F): 1.35 / Phase error: 28.53 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 135.05 Å2 / Biso mean: 55.8537 Å2 / Biso min: 15.42 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 3.03→28.508 Å
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Refine LS restraints |
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Total num. of bins used: 6
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