+Open data
-Basic information
Entry | Database: PDB / ID: 7dus | ||||||
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Title | Crystal structure of Mei2-RRM3 domain in S.pombe | ||||||
Components | Meiosis protein mei2 | ||||||
Keywords | RNA BINDING PROTEIN / Meiosis / Mmi / RRM / Pombe | ||||||
Function / homology | Function and homology information Tor2-Mei2-Ste11 complex / : / negative regulation of conjugation with zygote / positive regulation of metaphase/anaphase transition of meiosis II / Mei2 nuclear dot complex / Nrd1 complex / positive regulation of meiotic nuclear division / positive regulation of meiotic cell cycle / lncRNA binding / poly(U) RNA binding ...Tor2-Mei2-Ste11 complex / : / negative regulation of conjugation with zygote / positive regulation of metaphase/anaphase transition of meiosis II / Mei2 nuclear dot complex / Nrd1 complex / positive regulation of meiotic nuclear division / positive regulation of meiotic cell cycle / lncRNA binding / poly(U) RNA binding / nuclear chromosome / protein sequestering activity / meiotic cell cycle / regulation of DNA-templated transcription / RNA binding / nucleus / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Schizosaccharomyces pombe (fission yeast) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 2.5 Å | ||||||
Authors | Wu, B.X. / Xu, J.H. / Ma, J.B. | ||||||
Citation | Journal: To Be Published Title: Crystal structure of Mei2-RRM3 domain in S.pombe Authors: Wu, B.X. / Xu, J.H. / Ma, J.B. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 7dus.cif.gz | 38 KB | Display | PDBx/mmCIF format |
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PDB format | pdb7dus.ent.gz | 27.7 KB | Display | PDB format |
PDBx/mmJSON format | 7dus.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/du/7dus ftp://data.pdbj.org/pub/pdb/validation_reports/du/7dus | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 17845.762 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Schizosaccharomyces pombe (strain 972 / ATCC 24843) (yeast) Strain: 972 / ATCC 24843 / Gene: mei2, SPAC27D7.03c / Production host: Escherichia coli (E. coli) / References: UniProt: P08965 |
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#2: Chemical | ChemComp-CIT / |
#3: Water | ChemComp-HOH / |
Has ligand of interest | N |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 3.99 Å3/Da / Density % sol: 69.2 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 8.6 / Details: 15% PEG 3350, 0.2MTri-Sodium Citrate Tris pH 8.6 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: SYNCHROTRON / Site: SSRF / Beamline: BL19U1 / Wavelength: 0.9793 Å |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Nov 3, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9793 Å / Relative weight: 1 |
Reflection | Resolution: 2.5→30 Å / Num. obs: 10649 / % possible obs: 99.9 % / Redundancy: 16.5 % / CC1/2: 0.933 / CC star: 0.98 / Rmerge(I) obs: 0.125 / Rpim(I) all: 0.028 / Rrim(I) all: 0.117 / Net I/σ(I): 21.879 |
Reflection shell | Resolution: 2.5→2.59 Å / Redundancy: 14.3 % / Mean I/σ(I) obs: 2.16 / Num. unique obs: 1034 / CC1/2: 0.771 / CC star: 0.933 / Rpim(I) all: 0.271 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 2.5→30 Å / Cross valid method: FREE R-VALUE Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Displacement parameters | Biso mean: 41.28 Å2 | ||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.5→30 Å
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Refine LS restraints |
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