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- PDB-7bba: Structure of the TagL peptidoglycan binding domain from EAEC T6SS -
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Open data
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Basic information
Entry | Database: PDB / ID: 7bba | |||||||||
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Title | Structure of the TagL peptidoglycan binding domain from EAEC T6SS | |||||||||
![]() | Putative type VI secretion protein | |||||||||
![]() | PROTEIN BINDING / Peptidoglycan binding protein / type VI secretion system | |||||||||
Function / homology | Outer membrane protein, bacterial / OmpA-like domain superfamily / OmpA family / OmpA-like domain / OmpA-like domain profile. / membrane / Type VI secretion protein![]() | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Nguyen, V.S. / Cambillau, C. / Leone, P. | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Anchoring the T6SS to the cell wall: Crystal structure of the peptidoglycan binding domain of the TagL accessory protein. Authors: Nguyen, V.S. / Spinelli, S. / Cascales, E. / Roussel, A. / Cambillau, C. / Leone, P. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 104.8 KB | Display | ![]() |
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PDB format | ![]() | 79.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 350.1 KB | Display | ![]() |
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Full document | ![]() | 355.4 KB | Display | |
Data in XML | ![]() | 20.6 KB | Display | |
Data in CIF | ![]() | 28.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5m38S S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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3 | ![]()
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4 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 15130.050 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Chemical | ChemComp-SO4 / #3: Water | ChemComp-HOH / | Has ligand of interest | N | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.44 Å3/Da / Density % sol: 49.6 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, sitting drop / Details: 0.1 M MES, pH 5.5-6.5 0.6-1 M ammonium sulfate |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS3 S 6M / Detector: PIXEL / Date: Mar 2, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.919762 Å / Relative weight: 1 |
Reflection | Resolution: 2.43→34.9 Å / Num. obs: 21834 / % possible obs: 99.7 % / Redundancy: 21.1 % / Biso Wilson estimate: 72.08 Å2 / CC1/2: 0.991 / Net I/σ(I): 11.7 |
Reflection shell | Resolution: 2.43→2.57 Å / Num. unique obs: 3454 / CC1/2: 0.777 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 5M38 Resolution: 2.43→34.9 Å / Cor.coef. Fo:Fc: 0.898 / Cor.coef. Fo:Fc free: 0.891 / SU R Cruickshank DPI: 0.419 / Cross valid method: THROUGHOUT / σ(F): 0 / SU R Blow DPI: 0.413 / SU Rfree Blow DPI: 0.242 / SU Rfree Cruickshank DPI: 0.246
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Displacement parameters | Biso max: 122.73 Å2 / Biso mean: 75.57 Å2 / Biso min: 30 Å2
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Refine analyze | Luzzati coordinate error obs: 0.45 Å | ||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 2.43→34.9 Å
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LS refinement shell | Resolution: 2.43→2.45 Å / Rfactor Rfree error: 0 / Total num. of bins used: 51
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