+
Open data
-
Basic information
Entry | Database: PDB / ID: 7w8e | ||||||
---|---|---|---|---|---|---|---|
Title | Sweet taste protein Brazzein - R43A | ||||||
![]() | Defensin-like protein | ||||||
![]() | PLANT PROTEIN / Sweet taste Protein / Artficial sweetner | ||||||
Function / homology | Knottin, scorpion toxin-like superfamily / defense response to fungus / killing of cells of another organism / defense response to bacterium / extracellular region / Defensin-like protein![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Kim, T. / Yoon, T. | ||||||
Funding support | ![]()
| ||||||
![]() | #1: Journal: FEBS Lett / Year: 1994 Title: Brazzein, a new high-potency thermostable sweet protein from Pentadiplandra brazzeana B. Authors: Ming, D. / Hellekant, G. #3: Journal: FEBS Lett / Year: 2003 Title: Critical regions for the sweetness of brazzein. Authors: Jin, Z. / Danilova, V. / Assadi-Porter, F.M. / Aceti, D.J. / Markley, J.L. / Hellekant, G. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 28.9 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 16.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 630.1 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 631.8 KB | Display | |
Data in XML | ![]() | 4.7 KB | Display | |
Data in CIF | ![]() | 6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 4heqS S: Starting model for refinement |
---|---|
Similar structure data | Similarity search - Function & homology ![]() |
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||||||
Unit cell |
| ||||||||||||
Components on special symmetry positions |
|
-
Components
#1: Protein | Mass: 8263.392 Da / Num. of mol.: 1 / Mutation: R43A Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
---|---|
#2: Chemical | ChemComp-NA / |
#3: Water | ChemComp-HOH / |
Has ligand of interest | Y |
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 2.82 Å3/Da / Density % sol: 56.43 % |
---|---|
Crystal grow | Temperature: 291 K / Method: vapor diffusion, sitting drop / pH: 4 / Details: 1.5M NaCl, 1M Na-Citrate pH4.0 / PH range: 4 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
---|---|
Diffraction source | Source: ![]() ![]() |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Aug 30, 2016 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97933 Å / Relative weight: 1 |
Reflection | Resolution: 1.34→18.42 Å / Num. obs: 20107 / % possible obs: 94 % / Redundancy: 9.9 % / Biso Wilson estimate: 13.4 Å2 / CC1/2: 0.99 / CC star: 0.997 / Rmerge(I) obs: 0.115 / Rpim(I) all: 0.039 / Rrim(I) all: 0.119 / Net I/σ(I): 23.2 |
Reflection shell | Resolution: 1.343→1.36 Å / Num. unique obs: 20107 / Rpim(I) all: 0.055 / Rrim(I) all: 0.124 |
-
Processing
Software |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: ![]() Starting model: 4heq Resolution: 1.34→18.41 Å / SU ML: 0.1131 / Cross valid method: FREE R-VALUE / σ(F): 1.34 / Phase error: 20.1645 Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.1 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 18.11 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.34→18.41 Å
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell |
|