3F0C

Crystal structure of transcriptional regulator from Cytophaga hutchinsonii ATCC 33406


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP72921.0 Ammonium sulfate, 0.1M Hepes, 0.5% Pag 8000, pH 7.0 , VAPOR DIFFUSION, SITTING DROP, temperature 292K
Crystal Properties
Matthews coefficientSolvent content
3.5465.21

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 116.099α = 90
b = 116.099β = 90
c = 46.367γ = 120
Symmetry
Space GroupP 32 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315mirrors2008-06-01MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 19-IDAPS19-ID

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
12.954099.50.1258.4773576952286.3
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.9531000.5913.88.6362

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Cut-off Sigma (I)Cut-off Sigma (F)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONSADTHROUGHOUT2.9640227685733535099.420.220.210460.208830.27083RANDOM32.875
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
-1.4-0.7-1.42.09
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.697
r_dihedral_angle_4_deg23.979
r_dihedral_angle_3_deg21.617
r_dihedral_angle_1_deg7.146
r_scangle_it3.402
r_scbond_it2.051
r_angle_refined_deg1.844
r_mcangle_it1.415
r_angle_other_deg1.002
r_mcbond_it0.698
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.697
r_dihedral_angle_4_deg23.979
r_dihedral_angle_3_deg21.617
r_dihedral_angle_1_deg7.146
r_scangle_it3.402
r_scbond_it2.051
r_angle_refined_deg1.844
r_mcangle_it1.415
r_angle_other_deg1.002
r_mcbond_it0.698
r_mcbond_other0.102
r_chiral_restr0.088
r_bond_refined_d0.02
r_gen_planes_refined0.006
r_bond_other_d0.002
r_gen_planes_other0.001
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1536
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms10

Software

Software
Software NamePurpose
SBC-Collectdata collection
HKL-3000phasing
SHELXmodel building
Cootmodel building
MLPHAREphasing
DMmodel building
REFMACrefinement
HKL-3000data reduction
HKL-3000data scaling
SHELXphasing
DMphasing