[English] 日本語
Yorodumi- PDB-1zsh: Crystal structure of bovine arrestin-2 in complex with inositol h... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1zsh | ||||||
---|---|---|---|---|---|---|---|
Title | Crystal structure of bovine arrestin-2 in complex with inositol hexakisphosphate (IP6) | ||||||
Components | Beta-arrestin 1 | ||||||
Keywords | SIGNALING PROTEIN / Nonvisual arrestins / beta-arrestins / signal transduction | ||||||
Function / homology | Function and homology information MAP2K and MAPK activation / Activation of SMO / Golgi Associated Vesicle Biogenesis / Lysosome Vesicle Biogenesis / AP-2 adaptor complex binding / clathrin heavy chain binding / clathrin coat of coated pit / Ub-specific processing proteases / desensitization of G protein-coupled receptor signaling pathway / Cargo recognition for clathrin-mediated endocytosis ...MAP2K and MAPK activation / Activation of SMO / Golgi Associated Vesicle Biogenesis / Lysosome Vesicle Biogenesis / AP-2 adaptor complex binding / clathrin heavy chain binding / clathrin coat of coated pit / Ub-specific processing proteases / desensitization of G protein-coupled receptor signaling pathway / Cargo recognition for clathrin-mediated endocytosis / inositol hexakisphosphate binding / Clathrin-mediated endocytosis / clathrin-dependent endocytosis / G protein-coupled receptor internalization / acetylcholine receptor binding / Thrombin signalling through proteinase activated receptors (PARs) / G alpha (s) signalling events / clathrin binding / negative regulation of Notch signaling pathway / pseudopodium / phosphatidylinositol-3,4,5-trisphosphate binding / small molecule binding / positive regulation of receptor internalization / visual perception / G protein-coupled receptor binding / receptor internalization / protein transport / ubiquitin-dependent protein catabolic process / cytoplasmic vesicle / positive regulation of ERK1 and ERK2 cascade / molecular adaptor activity / positive regulation of protein phosphorylation / signal transduction / nucleus / plasma membrane / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Bos taurus (cattle) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.9 Å | ||||||
Authors | Milano, S.K. / Kim, Y.M. / Stefano, F.P. / Benovic, J.L. / Brenner, C. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 2006 Title: Nonvisual arrestin oligomerization and cellular localization are regulated by inositol hexakisphosphate binding Authors: Milano, S.K. / Kim, Y.M. / Stefano, F.P. / Benovic, J.L. / Brenner, C. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 1zsh.cif.gz | 82 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb1zsh.ent.gz | 61.2 KB | Display | PDB format |
PDBx/mmJSON format | 1zsh.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/zs/1zsh ftp://data.pdbj.org/pub/pdb/validation_reports/zs/1zsh | HTTPS FTP |
---|
-Related structure data
Related structure data | 1jsyS S: Starting model for refinement |
---|---|
Similar structure data |
-Links
-Assembly
Deposited unit |
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
|
-Components
#1: Protein | Mass: 47201.691 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Bos taurus (cattle) / Gene: ARRB1 / Plasmid: pTrcHisB (without His tag) / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3)-LYSS / References: UniProt: P17870 |
---|---|
#2: Chemical | ChemComp-MG / |
#3: Chemical | ChemComp-IHP / |
#4: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
---|
-Sample preparation
Crystal | Density Matthews: 2.96 Å3/Da / Density % sol: 58.53 % |
---|---|
Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 7.2 Details: Magnesium Formate, HEPES, Polypropylene glycol 400, pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 298K |
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: SYNCHROTRON / Site: NSLS / Beamline: X25 / Wavelength: 1.1 Å |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Aug 2, 2002 / Details: Mirrors |
Radiation | Monochromator: Si(111) double crystal / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.1 Å / Relative weight: 1 |
Reflection | Resolution: 2.8→41.8 Å / Num. all: 14795 / Num. obs: 14737 / % possible obs: 99.6 % / Observed criterion σ(F): 2 / Redundancy: 16.9 % / Rsym value: 0.047 / Net I/σ(I): 17.8 |
Reflection shell | Resolution: 2.8→2.9 Å / Rsym value: 0.301 / % possible all: 97.7 |
-Processing
Software |
| |||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB Entry 1JSY Resolution: 2.9→41.8 Å / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber
| |||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.9→41.8 Å
| |||||||||||||||||||||||||
Refine LS restraints |
|