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Open data
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Basic information
Entry | Database: PDB / ID: 1gxr | ||||||
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Title | WD40 Region of Human Groucho/TLE1 | ||||||
![]() | TRANSDUCIN-LIKE ENHANCER PROTEIN 1 | ||||||
![]() | TRANSCRIPTION / TRANSCRIPTIONAL CO-REPRESSOR / WD40 / TRANSCRIPTION REPRESSOR / WD REPEAT | ||||||
Function / homology | ![]() Repression of WNT target genes / beta-catenin-TCF complex / negative regulation of Wnt signaling pathway / negative regulation of anoikis / negative regulation of canonical NF-kappaB signal transduction / Deactivation of the beta-catenin transactivating complex / animal organ morphogenesis / Formation of the beta-catenin:TCF transactivating complex / negative regulation of canonical Wnt signaling pathway / NOTCH1 Intracellular Domain Regulates Transcription ...Repression of WNT target genes / beta-catenin-TCF complex / negative regulation of Wnt signaling pathway / negative regulation of anoikis / negative regulation of canonical NF-kappaB signal transduction / Deactivation of the beta-catenin transactivating complex / animal organ morphogenesis / Formation of the beta-catenin:TCF transactivating complex / negative regulation of canonical Wnt signaling pathway / NOTCH1 Intracellular Domain Regulates Transcription / Wnt signaling pathway / transcription corepressor activity / DNA-binding transcription factor binding / transcription regulator complex / negative regulation of DNA-templated transcription / positive regulation of gene expression / signal transduction / nucleoplasm / identical protein binding / nucleus / cytosol Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Pearl, L.H. / Roe, S.M. / Pickles, L.M. | ||||||
![]() | ![]() Title: Crystal Structure of the C-Terminal Wd40 Repeat Domain of the Human Groucho/Tle1 Transcriptional Corepressor Authors: Pickles, L.M. / Roe, S.M. / Hemingway, E.J. / Stifani, S. / Pearl, L.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 | ![]() | 150.2 KB | Display | ![]() |
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PDB format | ![]() | 116 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 443.4 KB | Display | ![]() |
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Full document | ![]() | 458.8 KB | Display | |
Data in XML | ![]() | 31.8 KB | Display | |
Data in CIF | ![]() | 47 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1erjS 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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Unit cell |
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Components
#1: Protein | Mass: 36853.469 Da / Num. of mol.: 2 Fragment: RESIDUES 443-770 (END OF SP-REGION 443-473 AND WD40 REPEAT DOMAIN 474-770) Source method: isolated from a genetically manipulated source Details: THIS CONSTRUCT CONTAINS ALL THE SEVEN WD REPEATS / Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | ChemComp-CA / | #3: Water | ChemComp-HOH / | Compound details | CHAIN A, B RESIDUES 475-511 WD REPEAT 1 CHAIN A, B RESIDUES 522-558 WD REPEAT 2 CHAIN A, B RESIDUES ...CHAIN A, B RESIDUES 475-511 WD REPEAT 1 CHAIN A, B RESIDUES 522-558 WD REPEAT 2 CHAIN A, B RESIDUES 565-602 WD REPEAT 3 CHAIN A, B RESIDUES 607-644 WD REPEAT 4 CHAIN A, B RESIDUES 649-685 WD REPEAT 5 CHAIN A, B RESIDUES 791-726 WD REPEAT 6 CHAIN A, B RESIDUES 732-768 WD REPEAT 7 | Sequence details | THE CONFLICT IS CONFIRMED BY RESEQUENCING THE GENE AND THE RESIDUES 464 AND 465 ARE CONFIRMED TO BE ...THE CONFLICT IS CONFIRMED BY RESEQUENCI | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.4 Å3/Da / Density % sol: 48 % | |||||||||||||||||||||||||
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Crystal grow | Temperature: 287 K / Method: microbatch / pH: 7 Details: CRYSTALS WERE GROWN BY MICROBATCH METHODS AT 14C. PROTEIN AT 6MG/ML, WAS MIXED WITH AN EQUAL VOLUME O PRECIPITANT (22% PEG8000, 100MM, NACACODYLATE, 100MM CAACETATE)., pH 7.00 | |||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 14 ℃ / Method: microdialysis | |||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC CCD / Detector: CCD / Date: Jan 15, 2002 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.933 Å / Relative weight: 1 |
Reflection | Resolution: 1.6→40 Å / Num. obs: 92007 / % possible obs: 100 % / Redundancy: 5.2 % / Biso Wilson estimate: 24 Å2 / Rmerge(I) obs: 0.064 / Net I/σ(I): 5.4 |
Reflection shell | Resolution: 1.6→1.67 Å / Redundancy: 3.7 % / Rmerge(I) obs: 0.273 / Mean I/σ(I) obs: 2.6 / % possible all: 100 |
Reflection | *PLUS Highest resolution: 1.65 Å / Lowest resolution: 50 Å / Num. obs: 83990 / % possible obs: 100 % |
Reflection shell | *PLUS Highest resolution: 1.6 Å / Lowest resolution: 1.7 Å / % possible obs: 100 % |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1ERJ Resolution: 1.65→40.45 Å / Rfactor Rfree error: 0.004 / Data cutoff high absF: 1439675.18 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 0
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 44.0585 Å2 / ksol: 0.348345 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 32.2 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 1.65→40.45 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.65→1.75 Å / Rfactor Rfree error: 0.012 / Total num. of bins used: 6
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Xplor file |
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Refinement | *PLUS % reflection Rfree: 5 % / Rfactor obs: 0.23 / Rfactor Rwork: 0.23 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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LS refinement shell | *PLUS Rfactor obs: 0.268 |