+Open data
-Basic information
Entry | Database: PDB / ID: 1fgy | ||||||
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Title | GRP1 PH DOMAIN WITH INS(1,3,4,5)P4 | ||||||
Components | GRP1Grape reaction product | ||||||
Keywords | SIGNALING PROTEIN / PH DOMAIN | ||||||
Function / homology | Function and homology information Intra-Golgi traffic / regulation of ARF protein signal transduction / Golgi vesicle transport / establishment of epithelial cell polarity / phosphatidylinositol-3,4,5-trisphosphate binding / positive regulation of cell adhesion / bicellular tight junction / ruffle / guanyl-nucleotide exchange factor activity / adherens junction ...Intra-Golgi traffic / regulation of ARF protein signal transduction / Golgi vesicle transport / establishment of epithelial cell polarity / phosphatidylinositol-3,4,5-trisphosphate binding / positive regulation of cell adhesion / bicellular tight junction / ruffle / guanyl-nucleotide exchange factor activity / adherens junction / nucleoplasm / plasma membrane / cytosol / cytoplasm Similarity search - Function | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / Resolution: 1.5 Å | ||||||
Authors | Lietzke, S.E. / Bose, S. / Cronin, T. / Klarlund, J. / Chawla, A. / Czech, M.P. / Lambright, D.G. | ||||||
Citation | Journal: Mol.Cell / Year: 2000 Title: Structural basis of 3-phosphoinositide recognition by pleckstrin homology domains. Authors: Lietzke, S.E. / Bose, S. / Cronin, T. / Klarlund, J. / Chawla, A. / Czech, M.P. / Lambright, D.G. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1fgy.cif.gz | 38.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1fgy.ent.gz | 29.9 KB | Display | PDB format |
PDBx/mmJSON format | 1fgy.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/fg/1fgy ftp://data.pdbj.org/pub/pdb/validation_reports/fg/1fgy | HTTPS FTP |
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-Related 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: 15118.962 Da / Num. of mol.: 1 / Fragment: PLECKSTRIN HOMOLOGY DOMAIN (RESIDUES 261 - 387) Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / Production host: Escherichia coli (E. coli) / References: UniProt: O08967 |
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#2: Chemical | ChemComp-4IP / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.69 Å3/Da / Density % sol: 54.36 % | ||||||||||||||||||||||||||||||||||||
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Crystal grow | *PLUS Temperature: 20 ℃ / pH: 4.8 / Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: NSLS / Beamline: X4A / Wavelength: 0.9915 |
Detector | Type: ADSC QUANTUM 4 / Detector: CCD |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9915 Å / Relative weight: 1 |
Reflection | Resolution: 1.54→50 Å / Num. all: 24163 / Num. obs: 24163 / % possible obs: 94 % / Observed criterion σ(F): 0 / Observed criterion σ(I): -3 / Redundancy: 4 % / Biso Wilson estimate: 24 Å2 / Rmerge(I) obs: 0.058 / Net I/σ(I): 16.1 |
Reflection shell | Resolution: 1.54→1.59 Å / Redundancy: 4 % / Rmerge(I) obs: 0.327 / % possible all: 85.3 |
Reflection shell | *PLUS % possible obs: 85.3 % / Mean I/σ(I) obs: 3.9 |
-Processing
Software |
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Refinement | Resolution: 1.5→6 Å / σ(F): 2 / σ(I): -3 / Stereochemistry target values: Engh & Huber
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Refinement step | Cycle: LAST / Resolution: 1.5→6 Å
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Refine LS restraints |
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