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Open data
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Basic information
Entry | Database: PDB / ID: 6dg0 | ||||||
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Title | MEC-8 C-terminal RRM domain bound to AGCACA | ||||||
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![]() | RNA BINDING PROTEIN/DNA / RNA recognition motif / splicing factor / RNA-binding / RNA BINDING PROTEIN / RNA BINDING PROTEIN-DNA complex | ||||||
Function / homology | ![]() nematode larval development / muscle organ morphogenesis / hemidesmosome assembly / mechanosensory behavior / embryo development ending in birth or egg hatching / neuron development / mRNA binding / RNA binding / nucleus Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Mackereth, C.D. / Soufari, H. | ||||||
![]() | ![]() Title: Structure of MEC-8 RRM2 in complex with AGCACA Authors: Soufari, H. / Mackereth, C.D. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 54.5 KB | Display | ![]() |
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PDB format | ![]() | 37.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 444 KB | Display | ![]() |
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Full document | ![]() | 445.1 KB | Display | |
Data in XML | ![]() | 9.6 KB | Display | |
Data in CIF | ![]() | 12.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1urnS 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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1 | ![]()
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2 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 9582.746 Da / Num. of mol.: 2 / Mutation: C227A,C266A Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: DNA chain | Mass: 1802.233 Da / Num. of mol.: 2 / Source method: obtained synthetically / Source: (synth.) ![]() ![]() #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.73 Å3/Da / Density % sol: 54.98 % |
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Crystal grow | Temperature: 294 K / Method: vapor diffusion, sitting drop / pH: 7.5 / Details: 1mM MES ph6.5, PEG 8000 25% |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() |
Detector | Type: DECTRIS PILATUS 200K / Detector: PIXEL / Date: Jan 1, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97 Å / Relative weight: 1 |
Reflection | Resolution: 2.457→28.082 Å / Num. obs: 8221 / % possible obs: 94.1 % / Redundancy: 1.8 % / Biso Wilson estimate: 31.75 Å2 / CC1/2: 0.996 / Rmerge(I) obs: 0.05359 / Rrim(I) all: 0.07579 / Net I/σ(I): 9.64 |
Reflection shell | Resolution: 2.457→2.544 Å / Redundancy: 1.4 % / Rmerge(I) obs: 0.2121 / Mean I/σ(I) obs: 2.56 / Num. unique obs: 658 / CC1/2: 0.932 / % possible all: 76.33 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 1URN Resolution: 2.457→28.082 Å / SU ML: 0.37 / Cross valid method: FREE R-VALUE / σ(F): 1.34 / Phase error: 31.51 / 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 | ||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.457→28.082 Å
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Refine LS restraints |
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LS refinement shell |
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