+
Open data
-
Basic information
Entry | Database: PDB / ID: 3wyi | ||||||
---|---|---|---|---|---|---|---|
Title | Structure of S. aureus undecaprenyl diphosphate synthase | ||||||
![]() | Isoprenyl transferase | ||||||
![]() | ![]() ![]() ![]() | ||||||
Function / homology | Undecaprenyl pyrophosphate synthetase / Decaprenyl diphosphate synthase-like / 3-Layer(aba) Sandwich / Alpha Beta / : ![]() | ||||||
Biological species | ![]() ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Gao, J. / Ko, T.P. / Huang, C.H. / Oldfield, E. / Guo, R.T. | ||||||
![]() | ![]() Title: Antibacterial drug leads: DNA and enzyme multitargeting. Authors: Zhu, W. / Wang, Y. / Li, K. / Gao, J. / Huang, C.H. / Chen, C.C. / Ko, T.P. / Zhang, Y. / Guo, R.T. / Oldfield, E. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 69.8 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 50.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
---|
-Related structure data
Related structure data | ![]() 3wyjC ![]() 4u82C ![]() 4u8aC ![]() 4u8bC ![]() 4u8cC ![]() 4h8eS C: citing same article ( S: Starting model for refinement |
---|---|
Similar structure data |
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 | ![]()
| ||||||||
Unit cell |
|
-
Components
#1: Protein | Mass: 29902.199 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() ![]() ![]() References: UniProt: W8UYA6, ![]() | ||
---|---|---|---|
#2: Chemical | #3: Water | ChemComp-HOH / | ![]() |
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 2.48 Å3/Da / Density % sol: 50.47 % |
---|---|
Crystal grow![]() | Temperature: 295 K / Method: vapor diffusion, sitting drop / pH: 6 Details: 100mM HEPES, pH 6.5, 200mM Magnesium chloride, 200mM Nickel chloride, 20% PEG 3350, VAPOR DIFFUSION, SITTING DROP, temperature 295K |
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: May 1, 2013 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 2→25 Å / Num. obs: 20923 / % possible obs: 100 % / Redundancy: 8.5 % / Rmerge(I) obs: 0.066 / Net I/σ(I): 32.8 |
Reflection shell | Resolution: 2→2.07 Å / Redundancy: 8.2 % / Rmerge(I) obs: 0.5 / Mean I/σ(I) obs: 3.6 / Num. unique all: 17400 / % possible all: 100 |
-
Processing
Software |
| ||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure![]() ![]() Starting model: 4H8E Resolution: 2→25 Å / Stereochemistry target values: Engh & Huber
| ||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2→25 Å
| ||||||||||||||||||||
LS refinement shell | Resolution: 2→2.07 Å
|