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- PDB-8cb2: A complex of cagX and cagY components of Helicobacter pylori type... -
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Open data
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Basic information
Entry | Database: PDB / ID: 8cb2 | ||||||
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Title | A complex of cagX and cagY components of Helicobacter pylori type IV secretion system | ||||||
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![]() | PROTEIN TRANSPORT / Helicobacter pylori / CagX_CTD / CagY_CTD / complex structure / interaction | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Isupov, M.N. / Jiang, M. / Zhang, H. / Wu, Y. | ||||||
Funding support | ![]()
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![]() | ![]() Title: A complex of cagX and cagY components of Helicobacter pylori type IV secretion system Authors: Isupov, M.N. / Jiang, M. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 167.2 KB | Display | ![]() |
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PDB format | ![]() | Display | ![]() | |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 746.5 KB | Display | ![]() |
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Full document | ![]() | 754.1 KB | Display | |
Data in XML | ![]() | 26.4 KB | Display | |
Data in CIF | ![]() | 36 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS domain:
NCS domain segments: End auth comp-ID: LEU / End label comp-ID: LEU
NCS ensembles :
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Components
#1: Protein | Mass: 19163.123 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #2: Protein | Mass: 28513.678 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() #3: Chemical | ChemComp-CA / | #4: Water | ChemComp-HOH / | Has ligand of interest | Y | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.15 Å3/Da / Density % sol: 60.91 % |
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Crystal grow | Temperature: 295 K / Method: vapor diffusion Details: 0.2M Calcium acetate, 0.1M Bis-tris pH 5.5 and 20% PEG 3350 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Nov 10, 2018 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9689 Å / Relative weight: 1 |
Reflection | Resolution: 2.7→49.08 Å / Num. obs: 30397 / % possible obs: 100 % / Redundancy: 13.1 % / CC1/2: 0.99 / Net I/σ(I): 5.9 |
Reflection shell | Resolution: 2.7→2.83 Å / Num. unique obs: 3985 / CC1/2: 0.241 / % possible all: 99.9 |
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Processing
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Refinement | Method to determine structure: ![]()
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: BABINET MODEL PLUS MASK | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 109.063 Å2
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Refinement step | Cycle: LAST / Resolution: 2.7→49.079 Å
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Refine LS restraints |
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Refine LS restraints NCS |
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LS refinement shell |
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