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Open data
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Basic information
Entry | Database: PDB / ID: 1u5g | ||||||
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Title | Crystal Structure of the PH Domain of SKAP-Hom | ||||||
![]() | Src-associated adaptor protein | ||||||
![]() | SIGNALING PROTEIN / PH Domain | ||||||
Function / homology | ![]() Signal regulatory protein family interactions / B cell activation / negative regulation of cell population proliferation / nucleoplasm / plasma membrane / cytoplasm / cytosol Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Tang, Y. / Swanson, K. / Neel, B.G. / Eck, M.J. | ||||||
![]() | ![]() Title: The Skap-hom dimerization and PH domains comprise a 3'-phosphoinositide-gated molecular switch. Authors: Swanson, K.D. / Tang, Y. / Ceccarelli, D.F. / Poy, F. / Sliwa, J.P. / Neel, B.G. / Eck, M.J. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 111.5 KB | Display | ![]() |
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PDB format | ![]() | 87.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 459.9 KB | Display | ![]() |
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Full document | ![]() | 478.8 KB | Display | |
Data in XML | ![]() | 23.2 KB | Display | |
Data in CIF | ![]() | 32.3 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2otxC ![]() 1u5fS S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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4 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 14208.134 Da / Num. of mol.: 4 / Fragment: PH Domain, residues 101-222 / Mutation: S101G, D102S Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.7 Å3/Da / Density % sol: 54.2 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 7.6 Details: PEG 4000, pH 7.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: Jul 19, 2003 / Details: mirrors |
Radiation | Monochromator: graphite / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.1→25 Å / Num. all: 33609 / Num. obs: 31477 / % possible obs: 93.1 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 7.5 % / Biso Wilson estimate: 27 Å2 / Rmerge(I) obs: 0.052 / Net I/σ(I): 16.3 |
Reflection shell | Resolution: 2.1→2.15 Å / Rmerge(I) obs: 0.379 / Mean I/σ(I) obs: 2.9 / Num. unique all: 2178 / % possible all: 97.9 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: Crystal Structure of the PH Domain of SKAP-Hom with Vector-derived N-terminal Linker Peptide, PDB entry 1U5F. Resolution: 2.1→25 Å / Isotropic thermal model: Isotropic / Cross valid method: THROUGHOUT / σ(F): 0 / σ(I): 0 / Stereochemistry target values: MAXIMUM LIKELIHOOD
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Displacement parameters | Biso mean: 46 Å2 | |||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.1→25 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.1→2.154 Å
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