+Open data
-Basic information
Entry | Database: PDB / ID: 3woz | ||||||
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Title | Crystal structure of CLASP2 TOG domain (TOG3) | ||||||
Components | CLIP-associating protein 2 | ||||||
Keywords | STRUCTURAL PROTEIN / HEAT Repeat / Microtubule binding / Tubulin / unknown / microtubule | ||||||
Function / homology | Function and homology information cortical microtubule plus-end / positive regulation of basement membrane assembly involved in embryonic body morphogenesis / negative regulation of wound healing, spreading of epidermal cells / kinetochore => GO:0000776 / regulation of gastrulation / vesicle targeting / microtubule anchoring / microtubule organizing center organization / basal cortex / positive regulation of extracellular matrix disassembly ...cortical microtubule plus-end / positive regulation of basement membrane assembly involved in embryonic body morphogenesis / negative regulation of wound healing, spreading of epidermal cells / kinetochore => GO:0000776 / regulation of gastrulation / vesicle targeting / microtubule anchoring / microtubule organizing center organization / basal cortex / positive regulation of extracellular matrix disassembly / Amplification of signal from unattached kinetochores via a MAD2 inhibitory signal / Mitotic Prometaphase / EML4 and NUDC in mitotic spindle formation / Resolution of Sister Chromatid Cohesion / establishment of mitotic spindle localization / RHO GTPases Activate Formins / regulation of epithelial to mesenchymal transition / Separation of Sister Chromatids / dystroglycan binding / negative regulation of focal adhesion assembly / microtubule nucleation / negative regulation of microtubule depolymerization / microtubule plus-end binding / regulation of microtubule-based process / microtubule organizing center / negative regulation of stress fiber assembly / exit from mitosis / regulation of axon extension / establishment or maintenance of cell polarity / positive regulation of epithelial cell migration / cytoplasmic microtubule / cell leading edge / Golgi organization / regulation of microtubule polymerization / platelet-derived growth factor receptor-beta signaling pathway / positive regulation of exocytosis / mitotic spindle assembly / regulation of microtubule polymerization or depolymerization / meiotic cell cycle / axonal growth cone / mitotic spindle organization / protein tyrosine kinase binding / protein localization to plasma membrane / spindle microtubule / regulation of actin cytoskeleton organization / ruffle membrane / trans-Golgi network / mitotic spindle / kinetochore / spindle pole / microtubule cytoskeleton organization / actin filament binding / cell migration / cell cortex / microtubule binding / microtubule / cell division / Golgi apparatus / plasma membrane / cytosol Similarity search - Function | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MAD / Resolution: 2.2 Å | ||||||
Authors | Hayashi, I. / Maki, T. | ||||||
Citation | Journal: J. Mol. Biol. / Year: 2015 Title: CLASP2 Has Two Distinct TOG Domains That Contribute Differently to Microtubule Dynamics Authors: Maki, T. / Grimaldi, A.D. / Fuchigami, S. / Kaverina, I. / Hayashi, I. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3woz.cif.gz | 190.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3woz.ent.gz | 160 KB | Display | PDB format |
PDBx/mmJSON format | 3woz.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 3woz_validation.pdf.gz | 450 KB | Display | wwPDB validaton report |
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Full document | 3woz_full_validation.pdf.gz | 458.6 KB | Display | |
Data in XML | 3woz_validation.xml.gz | 36.2 KB | Display | |
Data in CIF | 3woz_validation.cif.gz | 52.1 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/wo/3woz ftp://data.pdbj.org/pub/pdb/validation_reports/wo/3woz | HTTPS FTP |
-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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2 |
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3 |
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4 |
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Unit cell |
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-Components
#1: Protein | Mass: 26976.156 Da / Num. of mol.: 4 / Fragment: UNP residues 642-873 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / Gene: Clasp2, Kiaa0627 / Production host: Escherichia coli (E. coli) / References: UniProt: Q8BRT1 #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.49 Å3/Da / Density % sol: 50.55 % |
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Crystal grow | Temperature: 277 K / Method: microdialysis / pH: 8 Details: 10mM Tris, 50mM NaCl, 2mM DTT, pH 8.0, MICRODIALYSIS, temperature 277K |
-Data collection
Diffraction | Mean temperature: 100 K | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Diffraction source | Source: SYNCHROTRON / Site: Photon Factory / Beamline: BL-5A / Wavelength: 0.97893, 0.97921, 0.96399 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Nov 27, 2009 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation | Monochromator: Si 111 CHANNEL / Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation wavelength |
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Reflection | Resolution: 2.2→50 Å / Num. obs: 56897 / % possible obs: 99.5 % / Observed criterion σ(F): 20.3 / Observed criterion σ(I): 2.6 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection shell |
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-Processing
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Refinement | Method to determine structure: MAD / Resolution: 2.2→50 Å / Cor.coef. Fo:Fc: 0.942 / Cor.coef. Fo:Fc free: 0.92 / SU B: 7.186 / SU ML: 0.184 / Cross valid method: THROUGHOUT / ESU R: 0.337 / ESU R Free: 0.244 / 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: 58.379 Å2
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Refinement step | Cycle: LAST / Resolution: 2.2→50 Å
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Refine LS restraints |
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