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Open data
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Basic information
Entry | Database: PDB / ID: 4gok | ||||||
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Title | The Crystal structure of Arl2GppNHp in complex with UNC119a | ||||||
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![]() | SIGNALING PROTEIN / Small G proteins / Arl / Arf / GDI-like solubilizing factors / Cilia | ||||||
Function / homology | ![]() Transport of nucleosides and free purine and pyrimidine bases across the plasma membrane / negative regulation of caveolin-mediated endocytosis / negative regulation of clathrin-dependent endocytosis / acetylcholine transport / RAS processing / bicellular tight junction assembly / maintenance of protein location in nucleus / centrosome cycle / positive regulation of cell-substrate adhesion / regulation of glycolytic process ...Transport of nucleosides and free purine and pyrimidine bases across the plasma membrane / negative regulation of caveolin-mediated endocytosis / negative regulation of clathrin-dependent endocytosis / acetylcholine transport / RAS processing / bicellular tight junction assembly / maintenance of protein location in nucleus / centrosome cycle / positive regulation of cell-substrate adhesion / regulation of glycolytic process / negative regulation of GTPase activity / lipoprotein transport / regulation of aerobic respiration / intercellular bridge / regulation of microtubule polymerization / phototransduction / positive regulation of protein tyrosine kinase activity / mitotic cytokinesis / lateral plasma membrane / spindle midzone / positive regulation of microtubule polymerization / visual perception / mitochondrial intermembrane space / spindle pole / endocytosis / GDP binding / microtubule cytoskeleton / protein folding / nervous system development / chemical synaptic transmission / focal adhesion / GTPase activity / centrosome / lipid binding / synapse / nucleolus / GTP binding / Golgi apparatus / mitochondrion / nucleoplasm / nucleus / cytoplasm / cytosol Similarity search - Function | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Ismail, S. / Xiang-Chen, Y. / Miertzschke, M. / Vetter, I. / Koerner, C. / Wittinghofer, A. | ||||||
![]() | ![]() Title: Structural basis for Arl3-specific release of myristoylated ciliary cargo from UNC119. Authors: Ismail, S.A. / Chen, Y.X. / Miertzschke, M. / Vetter, I.R. / Koerner, C. / Wittinghofer, A. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 144.9 KB | Display | ![]() |
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PDB format | ![]() | 111.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1.1 MB | Display | ![]() |
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Full document | ![]() | 1.1 MB | Display | |
Data in XML | ![]() | 25.8 KB | Display | |
Data in CIF | ![]() | 34.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 4gojC ![]() 1kshS ![]() 3gqqS C: citing same article ( S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 19072.695 Da / Num. of mol.: 2 / Mutation: Q70L Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Protein | Mass: 26996.385 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #3: Chemical | #4: Chemical | #5: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.37 Å3/Da / Density % sol: 48.05 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: 2% PEG400 and 2M Ammonium Sulfate, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARMOSAIC 225 mm CCD / Detector: CCD / Date: Nov 28, 2008 |
Radiation | Monochromator: SAGITALLY - HORIZONTALLY FOCUSED SI(111) MONOCHROMATOR Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.6→29.85 Å / Num. all: 26616 / Num. obs: 26616 / % possible obs: 99.2 % / Redundancy: 3.98 % / Rmerge(I) obs: 0.219 / Net I/σ(I): 9.39 |
Reflection shell | Resolution: 2.6→2.65 Å / Redundancy: 3.8 % / Rmerge(I) obs: 0.66 / Mean I/σ(I) obs: 3 / Num. unique all: 1462 / % possible all: 99.3 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 1KSH, 3GQQ Resolution: 2.6→29.85 Å / Cor.coef. Fo:Fc: 0.929 / Cor.coef. Fo:Fc free: 0.904 / SU B: 10.871 / SU ML: 0.235 / Cross valid method: THROUGHOUT / ESU R: 0.713 / ESU R Free: 0.358 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN USED IF PRESENT IN THE INPUT
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | |||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 26.741 Å2
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Refinement step | Cycle: LAST / Resolution: 2.6→29.85 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.6→2.667 Å / Total num. of bins used: 20
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