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- PDB-3dsg: XC1028 from Xanthomonas campestris Adopts a PilZ Domain-like Stru... -
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Open data
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Basic information
Entry | Database: PDB / ID: 3dsg | ||||||
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Title | XC1028 from Xanthomonas campestris Adopts a PilZ Domain-like Structure Yet with Trivial c-di-GMP Binding Activity | ||||||
![]() | Type IV fimbriae assembly protein | ||||||
![]() | UNKNOWN FUNCTION / ![]() ![]() ![]() ![]() | ||||||
Function / homology | predicted glycosyltransferase like domains / ![]() ![]() ![]() ![]() ![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Li, T.N. / Chin, K.H. / Liu, J.H. / Wang, A.H.J. / Chou, S.H. | ||||||
![]() | ![]() Title: XC1028 from Xanthomonas campestris adopts a PilZ domain-like structure without a c-di-GMP switch. Authors: Li, T.N. / Chin, K.H. / Liu, J.H. / Wang, A.H. / 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 | ![]() | 65.2 KB | Display | ![]() |
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PDB format | ![]() | 53.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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2 | ![]()
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3 | ![]()
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Unit cell |
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Details | C2 |
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Components
#1: Protein | Mass: 10548.862 Da / Num. of mol.: 3 / Fragment: PilZ domain Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Production host: ![]() ![]() ![]() #2: Water | ChemComp-HOH / | ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.28 Å3/Da / Density % sol: 62.52 % |
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Crystal grow![]() | Temperature: 297 K / Method: vapor diffusion / pH: 6.5 Details: 0.1M sodium cacodylate pH 6.5, 18% PEG 2KMME, 2% glycerol, VAPOR DIFFUSION, temperature 297K |
-Data collection
Diffraction | Mean temperature: 100 K | ||||||||||||
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Diffraction source | Source: ![]() ![]() ![]() | ||||||||||||
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Jan 5, 2008 | ||||||||||||
Radiation | Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||
Radiation wavelength |
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Reflection | Resolution: 2.09→30 Å / Num. obs: 22930 / % possible obs: 94.7 % / Observed criterion σ(F): 2 / Observed criterion σ(I): 2 / Redundancy: 5.7 % / Biso Wilson estimate: 21.5 Å2 / Rmerge(I) obs: 0.044 / Rsym value: 0.22 / Net I/σ(I): 27.3 | ||||||||||||
Reflection shell | Resolution: 2.1→2.18 Å / Redundancy: 4.4 % / Rmerge(I) obs: 0.22 / Mean I/σ(I) obs: 5.3 / Num. unique all: 1714 / Rsym value: 0.23 / % possible all: 79 |
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Processing
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Refinement | Method to determine structure![]() ![]()
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 68.691 Å2 / ksol: 0.4 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 58.3 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.09→25.48 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2→2.13 Å / Total num. of bins used: 6
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Xplor file |
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