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- PDB-4f48: The X-ray structural of FimXEAL-c-di-GMP-PilZ complexes from Xant... -
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Open data
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Basic information
Entry | Database: PDB / ID: 4f48 | ||||||
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Title | The X-ray structural of FimXEAL-c-di-GMP-PilZ complexes from Xanthomonas campestris | ||||||
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![]() | SIGNALING PROTEIN / FimXEAL-c-di-GMP-PilZ complex / type IV pilus | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Chin, K.-H. / Liao, Y.-T. / Chou, S.-H. | ||||||
![]() | ![]() Title: Structural polymorphism of c-di-GMP bound to an EAL domain and in complex with a type II PilZ-domain protein. Authors: Chin, K.-H. / Kuo, W.-T. / Yu, Y.-J. / Liao, Y.-T. / Yang, M.T. / Chou, S.-H. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 82.9 KB | Display | ![]() |
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PDB format | ![]() | 61.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
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Links
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Assembly
Deposited unit | ![]()
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2 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Components
#1: Protein | Mass: 28074.807 Da / Num. of mol.: 1 / Fragment: UNP residues 437-684 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Gene: XCC2291 / Production host: ![]() ![]() |
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#2: Protein | Mass: 12433.372 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Gene: pilZ, XCC1024 / Production host: ![]() ![]() |
#3: Chemical | ChemComp-C2E / |
#4: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.89 Å3/Da / Density % sol: 57.45 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, sitting drop / pH: 8 Details: 0.1M HEPES pH 7.5, 20% PEG 3000, VAPOR DIFFUSION, SITTING DROP, temperature 298K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Apr 15, 2011 |
Radiation | Monochromator: GRAPHITE / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97934 Å / Relative weight: 1 |
Reflection | Resolution: 2.7→30 Å / Num. obs: 27412 / % possible obs: 99.4 % / Observed criterion σ(F): 2 / Observed criterion σ(I): 2 / Biso Wilson estimate: 22.9 Å2 |
Reflection shell | Highest resolution: 2.7 Å / % possible all: 99.4 |
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Processing
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Refinement | Method to determine structure: ![]() Details: 1. BULK SOLVENT MODEL USED 2. FRIEDEL PAIRS WERE CONSIDERED SEPARATELY AS UNIQUE REFLECTIONS IN THE CALCULATION OF THE STATISTICS.
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 22.9565 Å2 / ksol: 0.35 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 27.8 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 3→22.56 Å
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Refine LS restraints |
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Refine LS restraints NCS | NCS model details: NONE | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell | Resolution: 2.8→2.98 Å / Rfactor Rfree error: 0.032 / Total num. of bins used: 6
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Xplor file |
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