+
Open data
-
Basic information
Entry | Database: PDB / ID: 7o39 | ||||||
---|---|---|---|---|---|---|---|
Title | Crystal structure of S. aureus DivIVA N terminal domain | ||||||
![]() | DivIVA | ||||||
![]() | PROTEIN BINDING / Cell division / Divisome / molecular ruler | ||||||
Function / homology | DivIVA family / DivIVA domain / DivIVA protein / cell cycle / cell division / cytoplasm / Uncharacterized protein![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Rao, V.A. / Booth, S. / Lewis, R.J. | ||||||
Funding support | ![]()
| ||||||
![]() | ![]() Title: Crystal structure of S. aureus DivIVA N terminal domain Authors: Rao, V.A. / Booth, S. / Lewis, R.J. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 90.5 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 63.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 420.3 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 420.8 KB | Display | |
Data in XML | ![]() | 8.2 KB | Display | |
Data in CIF | ![]() | 11.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2wujS S: Starting model for refinement |
---|---|
Similar structure data |
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||||||
Unit cell |
|
-
Components
#1: Protein | Mass: 6909.777 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Strain: NCTC 8325 / PS 47 / Gene: SAOUHSC_01158 / Plasmid: pOPINRSF / Production host: ![]() ![]() #2: Water | ChemComp-HOH / | |
---|
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 2.22 Å3/Da / Density % sol: 44.62 % / Description: Cubic |
---|---|
Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / pH: 6.5 Details: 0.1 M Carboxylic acids, 0.1 M Buffer system 1 pH 6.5, 37.5 % v/v MPD_P1K_P3350; Morpheus G4 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
---|---|
Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS3 6M / Detector: PIXEL / Date: Feb 5, 2018 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97623 Å / Relative weight: 1 |
Reflection | Resolution: 1.3→37.08 Å / Num. obs: 31216 / % possible obs: 100 % / Redundancy: 6.9 % / Biso Wilson estimate: 15.87 Å2 / CC1/2: 0.99 / Rmerge(I) obs: 0.087 / Rpim(I) all: 0.051 / Rrim(I) all: 0.101 / Χ2: 0.8 / Net I/σ(I): 10.9 |
Reflection shell | Resolution: 1.3→1.32 Å / Redundancy: 6.8 % / Rmerge(I) obs: 0.556 / Mean I/σ(I) obs: 2.5 / Num. unique obs: 1504 / CC1/2: 0.904 / Rpim(I) all: 0.339 / Rrim(I) all: 0.653 / Χ2: 0.33 / % possible all: 99.6 |
-
Processing
Software |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: ![]() Starting model: 2WUJ Resolution: 1.3→36.95 Å / SU ML: 0.1175 / Cross valid method: FREE R-VALUE / σ(F): 1.38 / Phase error: 15.2283 Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 23.98 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.3→36.95 Å
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell |
|