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- PDB-4s0g: Crystal structure of PTPN3 (PTPH1) in complex with Eps15 pTyr849 ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 4s0g | ||||||
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Title | Crystal structure of PTPN3 (PTPH1) in complex with Eps15 pTyr849 P850V peptide | ||||||
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![]() | HYDROLASE/PROTEIN BINDING / Alpha Beta / ![]() | ||||||
Function / homology | ![]() regulation of membrane depolarization during action potential / negative regulation of membrane protein ectodomain proteolysis / Golgi to endosome transport / clathrin coat of coated pit / regulation of sodium ion transmembrane transporter activity / vesicle organization / postsynaptic neurotransmitter receptor internalization / clathrin coat assembly / endocytic recycling / ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Chen, K.-E. / Meng, T.C. / Wang, A.H.-J. | ||||||
![]() | ![]() Title: Substrate specificity and plasticity of FERM-containing protein tyrosine phosphatases. Authors: Chen, K.E. / Li, M.Y. / Chou, C.C. / Ho, M.R. / Chen, G.C. / Meng, T.C. / Wang, A.H. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 123.3 KB | Display | ![]() |
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PDB format | ![]() | 95.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 4rh5SC ![]() 4rh9C ![]() 4rhgC ![]() 4ri4C ![]() 4ri5C 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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Unit cell |
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Components
#1: Protein | Mass: 34887.664 Da / Num. of mol.: 1 / Fragment: Catalytic domain, UNP residues 628-909 / Mutation: D811A, C842S Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() ![]() |
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#2: Protein/peptide | ![]() Mass: 1126.021 Da / Num. of mol.: 1 / Fragment: Phosphotyrosine 849 peptide, UNP residues 846-854 / Mutation: P850V / Source method: obtained synthetically / Source: (synth.) ![]() ![]() |
#3: Water | ChemComp-HOH / ![]() |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.87 Å3/Da / Density % sol: 34.29 % |
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Crystal grow![]() | Temperature: 293 K / Method: vapor diffusion, sitting drop / pH: 8.5 Details: 0.1M Tris-HCl, 26% PEG 8000, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: RAYONIX MX225HE / Detector: CCD / Date: Jun 2, 2014 |
Radiation | Monochromator: SAGITALLY FOCUSED Si(111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 1.72→50 Å / Num. all: 28900 / Num. obs: 28900 / % possible obs: 99 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 3.8 % / Biso Wilson estimate: 19.5 Å2 / Rmerge(I) obs: 0.068 / Net I/σ(I): 15 |
Reflection shell | Resolution: 1.72→1.78 Å / Redundancy: 3.9 % / Rmerge(I) obs: 0.522 / Mean I/σ(I) obs: 2.1 / Num. unique all: 2839 / % possible all: 99.4 |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: PDB Entry 4RH5 Resolution: 1.723→37.076 Å / SU ML: 0.21 / σ(F): 1.33 / Phase error: 23.02 / Stereochemistry target values: MLHL
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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: 1.723→37.076 Å
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Refine LS restraints |
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Total num. of bins used: 10
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