+Open data
-Basic information
Entry | Database: PDB / ID: 7bqg | ||||||
---|---|---|---|---|---|---|---|
Title | Complex structure of SAV1 and Dendrin | ||||||
Components | Protein salvador homolog 1,Dendrin | ||||||
Keywords | SIGNALING PROTEIN / Hippo pathway / WW domain / SAV1 / Dendrin | ||||||
Function / homology | Function and homology information keratinocyte apoptotic process / Signaling by Hippo / intestinal epithelial cell differentiation / regulation of stem cell population maintenance / positive regulation of keratinocyte apoptotic process / negative regulation of cardiac muscle cell proliferation / lung epithelial cell differentiation / hippo signaling / regulation of organ growth / dendritic spine membrane ...keratinocyte apoptotic process / Signaling by Hippo / intestinal epithelial cell differentiation / regulation of stem cell population maintenance / positive regulation of keratinocyte apoptotic process / negative regulation of cardiac muscle cell proliferation / lung epithelial cell differentiation / hippo signaling / regulation of organ growth / dendritic spine membrane / hair follicle development / cardiac muscle cell proliferation / positive regulation of fat cell differentiation / ventricular septum morphogenesis / keratinocyte differentiation / epithelial cell proliferation / positive regulation of DNA-binding transcription factor activity / negative regulation of epithelial cell proliferation / postsynaptic membrane / perikaryon / molecular adaptor activity / DNA-binding transcription factor activity, RNA polymerase II-specific / protein stabilization / RNA polymerase II cis-regulatory region sequence-specific DNA binding / positive regulation of apoptotic process / negative regulation of cell population proliferation / dendrite / endoplasmic reticulum membrane / positive regulation of transcription by RNA polymerase II / identical protein binding / nucleus / plasma membrane / cytoplasm / cytosol Similarity search - Function | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 1.55010861961 Å | ||||||
Authors | Lin, Z. / Zhang, M. | ||||||
Funding support | Hong Kong, 1items
| ||||||
Citation | Journal: Cell Rep / Year: 2020 Title: A WW Tandem-Mediated Dimerization Mode of SAV1 Essential for Hippo Signaling. Authors: Lin, Z. / Xie, R. / Guan, K. / Zhang, M. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 7bqg.cif.gz | 63.8 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb7bqg.ent.gz | 37.6 KB | Display | PDB format |
PDBx/mmJSON format | 7bqg.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/bq/7bqg ftp://data.pdbj.org/pub/pdb/validation_reports/bq/7bqg | HTTPS FTP |
---|
-Related structure data
Related structure data | 7bqfSC S: Starting model for refinement C: citing same article (ref.) |
---|---|
Similar structure data |
-Links
-Assembly
Deposited unit |
| ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||||||
Unit cell |
| ||||||||||||
Components on special symmetry positions |
|
-Components
#1: Protein | Mass: 10320.290 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / Gene: Sav1, Ww45, Wwp3, Ddn, Gm748, Kiaa0749 / Production host: Escherichia coli (E. coli) / References: UniProt: Q8VEB2, UniProt: Q80TS7 | ||||
---|---|---|---|---|---|
#2: Chemical | #3: Water | ChemComp-HOH / | Has ligand of interest | Y | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
---|
-Sample preparation
Crystal | Density Matthews: 2.01 Å3/Da / Density % sol: 38.88 % |
---|---|
Crystal grow | Temperature: 289 K / Method: vapor diffusion, hanging drop Details: 2% w/v PEG 2000 MME and 100 mM BIS-TRIS propane (pH 9.0) |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
---|---|
Diffraction source | Source: SYNCHROTRON / Site: SSRF / Beamline: BL19U1 / Wavelength: 0.97915 Å |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Mar 17, 2019 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97915 Å / Relative weight: 1 |
Reflection | Resolution: 1.55→50 Å / Num. obs: 11875 / % possible obs: 99.6 % / Redundancy: 12.8 % / Biso Wilson estimate: 12.8744218645 Å2 / CC1/2: 0.99 / Net I/σ(I): 39.1 |
Reflection shell | Resolution: 1.55→1.58 Å / Num. unique obs: 599 / CC1/2: 0.69 |
-Processing
Software |
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 7BQF Resolution: 1.55010861961→49.6925 Å / SU ML: 0.149561517705 / Cross valid method: FREE R-VALUE / σ(F): 0 / Phase error: 21.1462025962
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 18.5003240728 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.55010861961→49.6925 Å
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints |
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell |
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement TLS params. | Method: refined / Origin x: 38.4734067236 Å / Origin y: 12.2274488768 Å / Origin z: 17.0675130407 Å
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement TLS group | Selection details: all |