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Open data
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Basic information
Entry | Database: PDB / ID: 3dj3 | ||||||
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Title | Crystal Structure of C-terminal Truncated TIP-1 (6-113) | ||||||
![]() | Tax1-binding protein 3 | ||||||
![]() | SIGNALING PROTEIN / TIP-1 / PDZ domain / Cytoplasm / Nucleus / Wnt signaling pathway | ||||||
Function / homology | ![]() RHO GTPases Activate Rhotekin and Rhophilins / negative regulation of protein localization to cell surface / negative regulation of Wnt signaling pathway / Rho protein signal transduction / Wnt signaling pathway / fibrillar center / beta-catenin binding / actin cytoskeleton / negative regulation of cell population proliferation / nucleus ...RHO GTPases Activate Rhotekin and Rhophilins / negative regulation of protein localization to cell surface / negative regulation of Wnt signaling pathway / Rho protein signal transduction / Wnt signaling pathway / fibrillar center / beta-catenin binding / actin cytoskeleton / negative regulation of cell population proliferation / nucleus / plasma membrane / cytoplasm Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Shen, Y. | ||||||
![]() | ![]() Title: Structural Basis of beta-Catenin Recognition by Tax-interacting Protein-1 Authors: Zhang, J. / Yan, X. / Shi, C. / Yang, X. / Guo, Y. / Tian, C. / Long, J. / Shen, Y. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 89.7 KB | Display | ![]() |
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PDB format | ![]() | 68.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 3diwSC ![]() 3dj1C 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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1 | ![]()
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2 | ![]()
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3 | ![]()
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4 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 12508.190 Da / Num. of mol.: 4 / Fragment: c-terminal truncation, UNP residues 1-112 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: 3.08 Å3/Da / Density % sol: 60.12 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 8 Details: 0.18M DL-malic acid, 25% PEG 3350, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() |
Detector | Type: MAR CCD 165 mm / Detector: CCD / Date: Mar 2, 2008 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97 Å / Relative weight: 1 |
Reflection | Resolution: 2.4→50 Å / Num. all: 23909 / Num. obs: 23790 / % possible obs: 99.5 % / Observed criterion σ(F): 2 / Observed criterion σ(I): 2 / Redundancy: 7.5 % / Biso Wilson estimate: 36.1 Å2 / Rmerge(I) obs: 0.045 / Net I/σ(I): 38 |
Reflection shell | Resolution: 2.4→2.49 Å / Redundancy: 6.8 % / Rmerge(I) obs: 0.149 / Mean I/σ(I) obs: 10 / Num. unique all: 2374 / % possible all: 98.8 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 3DIW Resolution: 2.4→26.03 Å / Rfactor Rfree error: 0.01 / Data cutoff high absF: 602441.81 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0 / Stereochemistry target values: Engh & Huber / Details: BULK SOLVENT MODEL USED
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 34.2045 Å2 / ksol: 0.35 e/Å3 | ||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 37.6 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.4→26.03 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.4→2.55 Å / Rfactor Rfree error: 0.036 / Total num. of bins used: 6
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Xplor file |
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