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- PDB-2xsf: Crystal structure of the RRM domain of mouse Deleted in azoosperm... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2xsf | ||||||
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Title | Crystal structure of the RRM domain of mouse Deleted in azoospermia- like | ||||||
![]() | DELETED IN AZOOSPERMIA-LIKE | ||||||
![]() | RNA BINDING PROTEIN | ||||||
Function / homology | ![]() female meiosis II / translation activator activity / positive regulation of meiotic nuclear division / oocyte maturation / 3'-UTR-mediated mRNA stabilization / germ cell development / positive regulation of translational initiation / mRNA 3'-UTR binding / spermatogenesis / ribosome ...female meiosis II / translation activator activity / positive regulation of meiotic nuclear division / oocyte maturation / 3'-UTR-mediated mRNA stabilization / germ cell development / positive regulation of translational initiation / mRNA 3'-UTR binding / spermatogenesis / ribosome / protein-containing complex / identical protein binding / nucleus / cytoplasm Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Jenkins, H.T. / Edwards, T.A. | ||||||
![]() | ![]() Title: Kinked Beta-Strands Mediate High-Affinity Recognition of Mrna Targets by the Germ-Cell Regulator Dazl Authors: Jenkins, H.T. / Edwards, T.A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 50.7 KB | Display | ![]() |
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PDB format | ![]() | 36.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 441.6 KB | Display | ![]() |
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Full document | ![]() | 442.3 KB | Display | |
Data in XML | ![]() | 6.8 KB | Display | |
Data in CIF | ![]() | 8.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2xs2C ![]() 2xs5C ![]() 2xs7C ![]() 3bs9S 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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Components
#1: Protein | Mass: 9896.392 Da / Num. of mol.: 1 / Fragment: RESIDUES 35-118 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() | ||||
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#2: Chemical | #3: Chemical | ChemComp-SO4 / | #4: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.76 Å3/Da / Density % sol: 55 % / Description: NONE |
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Crystal grow | pH: 7.5 Details: 2.1 M LITHIUM SULPHATE, 50 MM HEPES PH 7.5, 5 % (V/V) GLYCEROL |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC CCD / Detector: CCD / Date: Sep 18, 2006 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.979 Å / Relative weight: 1 |
Reflection | Resolution: 1.7→20 Å / Num. obs: 12616 / % possible obs: 99.9 % / Observed criterion σ(I): 6 / Redundancy: 11.8 % / Rmerge(I) obs: 0.07 / Net I/σ(I): 21.9 |
Reflection shell | Resolution: 1.7→1.79 Å / Redundancy: 12 % / Rmerge(I) obs: 0.6 / Mean I/σ(I) obs: 4.7 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 3BS9 Resolution: 1.7→22 Å / Cor.coef. Fo:Fc: 0.956 / Cor.coef. Fo:Fc free: 0.949 / SU B: 3.617 / SU ML: 0.056 / Cross valid method: THROUGHOUT / ESU R: 0.095 / ESU R Free: 0.088 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 25.67 Å2
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Refinement step | Cycle: LAST / Resolution: 1.7→22 Å
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Refine LS restraints |
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