[English] 日本語
Yorodumi- PDB-1wi4: Solution structure of the PDZ domain of syntaxin binding protein 4 -
+Open data
-Basic information
Entry | Database: PDB / ID: 1wi4 | ||||||
---|---|---|---|---|---|---|---|
Title | Solution structure of the PDZ domain of syntaxin binding protein 4 | ||||||
Components | syntaxin binding protein 4 | ||||||
Keywords | PROTEIN BINDING / syntaxin4-interacting protein / synip / Stxbp4 protein / STRUCTURAL GENOMICS / NPPSFA / National Project on Protein Structural and Functional Analyses / RIKEN Structural Genomics/Proteomics Initiative / RSGI | ||||||
Function / homology | Function and homology information regulation of glucose transmembrane transport / positive regulation of keratinocyte proliferation / positive regulation of cell cycle G1/S phase transition / regulation of insulin secretion involved in cellular response to glucose stimulus / syntaxin binding / protein targeting / phagocytic vesicle / cellular response to type II interferon / insulin receptor signaling pathway / protein stabilization / DNA damage response Similarity search - Function | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | SOLUTION NMR | ||||||
Authors | Endo, H. / Tomizawa, T. / Kigawa, T. / Yoshida, M. / Hayashi, F. / Yokoyama, S. / RIKEN Structural Genomics/Proteomics Initiative (RSGI) | ||||||
Citation | Journal: To be published Title: Solution structure of the PDZ domain of syntaxin binding protein 4 Authors: Endo, H. / Tomizawa, T. / Kigawa, T. / Yoshida, M. / Hayashi, F. / Yokoyama, S. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 1wi4.cif.gz | 640 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb1wi4.ent.gz | 532.9 KB | Display | PDB format |
PDBx/mmJSON format | 1wi4.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1wi4_validation.pdf.gz | 344.1 KB | Display | wwPDB validaton report |
---|---|---|---|---|
Full document | 1wi4_full_validation.pdf.gz | 497.9 KB | Display | |
Data in XML | 1wi4_validation.xml.gz | 39.1 KB | Display | |
Data in CIF | 1wi4_validation.cif.gz | 61.1 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/wi/1wi4 ftp://data.pdbj.org/pub/pdb/validation_reports/wi/1wi4 | HTTPS FTP |
-Related structure data
Similar structure data | |
---|---|
Other databases |
-Links
-Assembly
Deposited unit |
| |||||||||
---|---|---|---|---|---|---|---|---|---|---|
1 |
| |||||||||
NMR ensembles |
|
-Components
#1: Protein | Mass: 11616.158 Da / Num. of mol.: 1 / Fragment: PDZ Domain Source method: isolated from a genetically manipulated source Source: (gene. exp.) Mus musculus (house mouse) / Description: Cell Free Synthesis / Gene: RIKEN cDNA 2700027C09 / Plasmid: P030203-50 / References: UniProt: Q9WV89 |
---|
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
NMR experiment |
|
-Sample preparation
Details | Contents: 200mM 13C, 15N-labeled protein; 20mM phosphate buffer; 100mM NaCl; 1mM d-DTT; 0.02% NaN3; 10% D2O Solvent system: 90% H2O/10% D2O |
---|---|
Sample conditions | Ionic strength: 120 / pH: 6 / Pressure: ambient / Temperature: 298 K |
-NMR measurement
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M |
---|---|
Radiation wavelength | Relative weight: 1 |
NMR spectrometer | Type: Bruker AVANCE / Manufacturer: Bruker / Model: AVANCE / Field strength: 800 MHz |
-Processing
NMR software |
| ||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the least restraint violations, target function Conformers calculated total number: 100 / Conformers submitted total number: 20 |