3CS3

Crystal structure of sugar-binding transcriptional regulator (LacI family) from Enterococcus faecalis


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP52942.8M Ammonium sulfate pH 5.0, 100mM Sodium citrate, 10% Glycerol, VAPOR DIFFUSION, SITTING DROP, temperature 294K
Crystal Properties
Matthews coefficientSolvent content
3.1761.14

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 93.25α = 90
b = 93.25β = 90
c = 158.02γ = 120
Symmetry
Space GroupP 65 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray77CCDMAR CCD 165 mm2008-03-14MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 31-ID0.9793APS31-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
12.35501000.117419.217634-0.544.05
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)
12.352.431000.931.714.7

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONSADTHROUGHOUT2.420159785161000.205670.204320.24916RANDOM54.519
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]
-1.1-0.55-1.11.66
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.056
r_dihedral_angle_3_deg19.298
r_dihedral_angle_4_deg15.59
r_scangle_it9.324
r_scbond_it6.99
r_mcangle_it6.32
r_dihedral_angle_1_deg6.197
r_mcbond_it4.261
r_angle_refined_deg1.168
r_nbtor_refined0.301
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.056
r_dihedral_angle_3_deg19.298
r_dihedral_angle_4_deg15.59
r_scangle_it9.324
r_scbond_it6.99
r_mcangle_it6.32
r_dihedral_angle_1_deg6.197
r_mcbond_it4.261
r_angle_refined_deg1.168
r_nbtor_refined0.301
r_xyhbond_nbd_refined0.159
r_nbd_refined0.142
r_symmetry_hbond_refined0.122
r_symmetry_vdw_refined0.119
r_chiral_restr0.087
r_bond_refined_d0.008
r_gen_planes_refined0.004
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2112
Nucleic Acid Atoms
Solvent Atoms49
Heterogen Atoms26

Software

Software
Software NamePurpose
SHELXmodel building
REFMACrefinement
MAR345data collection
HKL-2000data reduction
HKL-2000data scaling
SHELXDphasing