4RXU

Crystal structure of carbohydrate transporter solute binding protein CAUR_1924 from Chloroflexus aurantiacus, Target EFI-511158, in complex with D-glucose


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP3.5294PROTEIN (10 MM HEPES PH 7.5, 5 MM DTT, 10 MM D-ARABINOSE); RESERVOIR: 0.1 M CITRIC ACID:NAOH, PH 3.5, 25% PEG3350; CRYOPROTECTION: RESERVOIR SOLUTION; VAPOR DIFFUSION, SITTING DROP, temperature 294K
Crystal Properties
Matthews coefficientSolvent content
1.9536.83

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 42.037α = 90
b = 51.426β = 90
c = 140.125γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRAYONIX MX225HEMIRRORS2014-12-05MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 31-IDAPS31-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
11.45099.10.07118.2960271-3
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)
11.41.4295.40.572.46.1

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 DIFFRACTIONSADTHROUGHOUT1.45058388179498.930.130310.128870.17653RANDOM15.241
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]
0.220.05-0.27
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.174
r_sphericity_free25.272
r_dihedral_angle_4_deg13.479
r_dihedral_angle_3_deg13.049
r_sphericity_bonded11.949
r_scbond_it5.81
r_scbond_other5.81
r_scangle_other5.794
r_dihedral_angle_1_deg5.664
r_long_range_B_refined4.986
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.174
r_sphericity_free25.272
r_dihedral_angle_4_deg13.479
r_dihedral_angle_3_deg13.049
r_sphericity_bonded11.949
r_scbond_it5.81
r_scbond_other5.81
r_scangle_other5.794
r_dihedral_angle_1_deg5.664
r_long_range_B_refined4.986
r_long_range_B_other4.985
r_rigid_bond_restr2.566
r_mcangle_other2.545
r_mcangle_it2.503
r_mcbond_it2.282
r_mcbond_other2.22
r_angle_refined_deg1.508
r_angle_other_deg0.864
r_chiral_restr0.201
r_bond_refined_d0.01
r_gen_planes_refined0.007
r_bond_other_d0.001
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_scangle_it
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2589
Nucleic Acid Atoms
Solvent Atoms452
Heterogen Atoms25

Software

Software
Software NamePurpose
SHELXmodel building
ARP/wARPmodel building
REFMACrefinement
XDSdata reduction
SCALAdata scaling
SHELXphasing