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- PDB-3gqm: Crystal structure of Cell Inhibiting Factor (Cif) from Burkholder... -
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Open data
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Basic information
Entry | Database: PDB / ID: 3gqm | ||||||
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Title | Crystal structure of Cell Inhibiting Factor (Cif) from Burkholderia pseudomallei (CifBp) | ||||||
![]() | Cell Inhibiting Factor (CifBp) | ||||||
![]() | UNKNOWN FUNCTION / Cell Inhibiting factor / Cif / CifBp | ||||||
Function / homology | Protein-glutamine deamidase Cif / Cycle inhibiting factor (CIF) / symbiont-mediated perturbation of host cell cycle progression / protein-glutamine glutaminase activity / protein-glutamine glutaminase / toxin activity / host cell nucleus / extracellular region / Protein-glutamine deamidase Cif![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Crow, A. / Banfield, M.J. | ||||||
![]() | ![]() Title: Crystal structures of Cif from bacterial pathogens Photorhabdus luminescens and Burkholderia pseudomallei. Authors: Crow, A. / Race, P.R. / Jubelin, G. / Varela Chavez, C. / Escoubas, J.M. / Oswald, E. / Banfield, M.J. | ||||||
History |
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Remark 650 | HELIX DETERMINATION METHOD: AUTHOR DETERMINED |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 110.1 KB | Display | ![]() |
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PDB format | ![]() | 84.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 440 KB | Display | ![]() |
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Full document | ![]() | 448 KB | Display | |
Data in XML | ![]() | 20.1 KB | Display | |
Data in CIF | ![]() | 27.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 3gqjSC S: Starting model for refinement C: citing same article ( |
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Similar 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
#1: Protein | Mass: 30854.035 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.89 Å3/Da / Density % sol: 35.07 % |
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, sitting drop / pH: 7.5 Details: 10 % (w/v) PEG 8000, 100 mM HEPES 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 291K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Detector: CCD / Date: Jun 6, 2008 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.92 Å / Relative weight: 1 |
Reflection | Resolution: 2.1→22.01 Å / Num. all: 29440 / Num. obs: 29440 / % possible obs: 99.9 % / Observed criterion σ(F): 1 / Observed criterion σ(I): 1 / Redundancy: 5 % / Rsym value: 0.05 / Net I/σ(I): 20.2 |
Reflection shell | Resolution: 2.1→2.21 Å / Redundancy: 4.9 % / Mean I/σ(I) obs: 3.5 / Rsym value: 0.374 / % possible all: 99.9 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 3GQJ Resolution: 2.1→22.01 Å / Cor.coef. Fo:Fc: 0.943 / Cor.coef. Fo:Fc free: 0.911 / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R: 0.256 / ESU R Free: 0.208 / Stereochemistry target values: MAXIMUM LIKELIHOOD / Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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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: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 36.052 Å2
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Refinement step | Cycle: LAST / Resolution: 2.1→22.01 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.1→2.155 Å / Total num. of bins used: 20
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