+Open data
-Basic information
Entry | Database: PDB / ID: 4zrj | ||||||
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Title | Structure of Merlin-FERM and CTD | ||||||
Components | (Merlin) x 2 | ||||||
Keywords | SIGNALING PROTEIN / Merlin / FERM / CTD | ||||||
Function / homology | Function and homology information regulation of hippo signaling / regulation of organelle assembly / regulation of gliogenesis / positive regulation of early endosome to late endosome transport / Schwann cell proliferation / osteoblast proliferation / negative regulation of Schwann cell proliferation / negative regulation of osteoblast proliferation / negative regulation of tyrosine phosphorylation of STAT protein / ectoderm development ...regulation of hippo signaling / regulation of organelle assembly / regulation of gliogenesis / positive regulation of early endosome to late endosome transport / Schwann cell proliferation / osteoblast proliferation / negative regulation of Schwann cell proliferation / negative regulation of osteoblast proliferation / negative regulation of tyrosine phosphorylation of STAT protein / ectoderm development / lens fiber cell differentiation / positive regulation of protein localization to early endosome / regulation of neural precursor cell proliferation / regulation of stem cell proliferation / negative regulation of receptor signaling pathway via JAK-STAT / cell-cell junction organization / filopodium membrane / regulation of protein localization to nucleus / negative regulation of cell-matrix adhesion / cortical actin cytoskeleton / negative regulation of MAPK cascade / negative regulation of cell-cell adhesion / odontogenesis of dentin-containing tooth / RHO GTPases activate PAKs / cleavage furrow / mesoderm formation / positive regulation of stress fiber assembly / negative regulation of cell migration / filopodium / hippocampus development / positive regulation of cell differentiation / adherens junction / regulation of protein stability / Regulation of actin dynamics for phagocytic cup formation / ruffle membrane / MAPK cascade / integrin binding / apical part of cell / lamellipodium / cell body / actin binding / regulation of cell shape / actin cytoskeleton organization / regulation of apoptotic process / cytoskeleton / early endosome / regulation of cell cycle / neuron projection / negative regulation of cell population proliferation / nucleolus / perinuclear region of cytoplasm / membrane / nucleus / plasma membrane / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.3 Å | ||||||
Authors | Lin, Z. / Li, F. / Long, J. / Shen, Y. | ||||||
Citation | Journal: Cell Res. / Year: 2015 Title: Angiomotin binding-induced activation of Merlin/NF2 in the Hippo pathway Authors: Li, Y. / Zhou, H. / Li, F. / Chan, S.W. / Lin, Z. / Wei, Z. / Yang, Z. / Guo, F. / Lim, C.J. / Xing, W. / Shen, Y. / Hong, W. / Long, J. / Zhang, M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4zrj.cif.gz | 95.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4zrj.ent.gz | 70.1 KB | Display | PDB format |
PDBx/mmJSON format | 4zrj.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/zr/4zrj ftp://data.pdbj.org/pub/pdb/validation_reports/zr/4zrj | HTTPS FTP |
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-Related structure data
Related structure data | 4zriC 4zrkC 1isnS C: citing same article (ref.) S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 37730.621 Da / Num. of mol.: 1 / Fragment: FERM domain, UNP residues 1-320 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: NF2, SCH / Production host: Escherichia coli (E. coli) / References: UniProt: P35240 | ||
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#2: Protein | Mass: 10749.181 Da / Num. of mol.: 1 / Fragment: C terminal domain, UNP residues 506-595 / Mutation: S518D, A585W Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: NF2, SCH / Production host: Escherichia coli (E. coli) / References: UniProt: P35240 | ||
#3: Chemical | ChemComp-GOL / #4: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 1.97 Å3/Da / Density % sol: 37.45 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 6 / Details: 0.1 M Bis-Tris, 21% PEG 3000 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: Photon Factory / Beamline: BL-17A / Wavelength: 0.9793 Å |
Detector | Type: ADSC QUANTUM 270 / Detector: CCD / Date: Sep 23, 2013 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9793 Å / Relative weight: 1 |
Reflection | Resolution: 2.3→50 Å / Num. obs: 17339 / % possible obs: 99.5 % / Redundancy: 7.2 % / Net I/σ(I): 26.3 |
Reflection shell | Resolution: 2.3→2.37 Å / Redundancy: 6.6 % / Rmerge(I) obs: 0.239 / Mean I/σ(I) obs: 7.3 / % possible all: 98.6 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 1ISN Resolution: 2.3→31.505 Å / SU ML: 0.25 / Cross valid method: FREE R-VALUE / σ(F): 0 / Phase error: 23.2 / 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: 2.3→31.505 Å
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Refine LS restraints |
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LS refinement shell |
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