3KLK

Crystal structure of Lactobacillus reuteri N-terminally truncated glucansucrase GTF180 in triclinic apo- form


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.5293PEG 3350, sodium potassium phosphate, BIS-TRIS propane-HCl buffer, pH 6.5, vapor diffusion, hanging drop, temperature 293K

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 58.279α = 73.3
b = 65.949β = 78.46
c = 82.506γ = 85.82
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315r2005-12-17MSINGLE WAVELENGTH
22x-ray100CCDADSC QUANTUM 315r2005-12-17MMAD
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID290.9791ESRFID29
2SYNCHROTRONESRF BEAMLINE ID290.97911, 0.97927, 0.97564ESRFID29

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym 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
1,21.6577.62596.50.0770.07712.33.7133854
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
1.651.7494.80.4530.4531.53.719213

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 DIFFRACTIONMADTHROUGHOUT1.6520133798671596.50.1670.1650.195RANDOM22.596
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]
0.19-0.530.680.1-0.14-0.4
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.853
r_dihedral_angle_4_deg15.744
r_dihedral_angle_3_deg12.689
r_scangle_it7.894
r_scbond_it7.556
r_dihedral_angle_1_deg6.134
r_mcbond_it5.358
r_mcangle_it5.321
r_angle_refined_deg1.558
r_symmetry_hbond_refined0.347
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.853
r_dihedral_angle_4_deg15.744
r_dihedral_angle_3_deg12.689
r_scangle_it7.894
r_scbond_it7.556
r_dihedral_angle_1_deg6.134
r_mcbond_it5.358
r_mcangle_it5.321
r_angle_refined_deg1.558
r_symmetry_hbond_refined0.347
r_nbtor_refined0.322
r_symmetry_vdw_refined0.309
r_nbd_refined0.226
r_xyhbond_nbd_refined0.162
r_chiral_restr0.12
r_metal_ion_refined0.076
r_bond_refined_d0.022
r_gen_planes_refined0.008
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms7977
Nucleic Acid Atoms
Solvent Atoms1055
Heterogen Atoms49

Software

Software
Software NamePurpose
SCALAdata scaling
SOLVEphasing
RESOLVEphasing
REFMACrefinement
PDB_EXTRACTdata extraction
MOSFLMdata reduction