[English] 日本語
![](img/lk-miru.gif)
- PDB-2rv2: Solution structures of the DNA-binding domain (ZF14) of immune-re... -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 2rv2 | ||||||
---|---|---|---|---|---|---|---|
Title | Solution structures of the DNA-binding domain (ZF14) of immune-related zinc-finger protein ZFAT | ||||||
![]() | Zinc finger protein ZFAT | ||||||
![]() | TRANSCRIPTION / ZFAT / zinc finger | ||||||
Function / homology | ![]() spongiotrophoblast layer development / hematopoietic progenitor cell differentiation / DNA-binding transcription activator activity, RNA polymerase II-specific / DNA-binding transcription factor activity, RNA polymerase II-specific / RNA polymerase II cis-regulatory region sequence-specific DNA binding / regulation of DNA-templated transcription / nucleus / metal ion binding / cytosol Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | SOLUTION NMR / DGSA-distance geometry simulated annealing | ||||||
Model details | lowest energy, model1 | ||||||
![]() | Tochio, N. / Umehara, T. / Kigawa, T. / Yokoyama, S. | ||||||
![]() | ![]() Title: Solution structures of the DNA-binding domains of immune-related zinc-finger protein ZFAT Authors: Tochio, N. / Umehara, T. / Nakabayashi, K. / Yoneyama, M. / Tsuda, K. / Shirouzu, M. / Koshiba, S. / Watanabe, S. / Kigawa, T. / Sasazuki, T. / Shirasawa, S. / Yokoyama, S. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 217.2 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 179.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 400.3 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 492.7 KB | Display | |
Data in XML | ![]() | 12 KB | Display | |
Data in CIF | ![]() | 20.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2rutC ![]() 2ruuC ![]() 2ruvC ![]() 2ruwC ![]() 2ruxC ![]() 2ruyC ![]() 2ruzC ![]() 2rv0C ![]() 2rv1C ![]() 2rv3C ![]() 2rv4C ![]() 2rv5C ![]() 2rv6C ![]() 2rv7C C: citing same article ( |
---|---|
Similar structure data | |
Other databases |
-
Links
-
Assembly
Deposited unit | ![]()
| |||||||||
---|---|---|---|---|---|---|---|---|---|---|
1 |
| |||||||||
NMR ensembles |
|
-
Components
#1: Protein/peptide | Mass: 3924.429 Da / Num. of mol.: 1 / Fragment: UNP residues 907-935 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() |
---|---|
#2: Chemical | ChemComp-ZN / |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
NMR experiment |
|
-
Sample preparation
Details | Contents: 1.15 mM [U-13C; U-15N] protein-1, 20 mM [U-2H] TRIS-2, 100 mM sodium chloride-3, 1 mM [U-2H] DTT-4, 0.02 % sodium azide-5, 50 uM zinc chloride-6, 90 % H2O-7, 10 % [U-2H] D2O-8, 90% H2O/10% D2O Solvent system: 90% H2O/10% D2O | ||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Sample |
| ||||||||||||||||||||||||||||||||||||
Sample conditions | Ionic strength: 120 / pH: 7 / Pressure: 1 atm / Temperature: 296 K |
-NMR measurement
NMR spectrometer | Type: Bruker Avance / Manufacturer: Bruker / Model: AVANCE / Field strength: 700 MHz |
---|
-
Processing
NMR software |
| ||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method: DGSA-distance geometry simulated annealing / Software ordinal: 1 | ||||||||||||||||||||||||
NMR representative | Selection criteria: lowest energy | ||||||||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 20 / Conformers submitted total number: 20 / Representative conformer: 1 |