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Dioxane contributes to the altered conformation and oligomerization state of a designed engrailed homeodomain variant
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 293 dioxane, sodium citrate, MES, PEG 400, Cadmium Chloride, pH 5.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.34 47.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.712 α = 90 b = 52.646 β = 90 c = 82.182 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU RAXIS IV mirrors 2003-12-21 M SINGLE WAVELENGTH 2 1 100 CCD ADSC QUANTUM 315 monochrometer 2004-06-03
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU300 1.5418 2 SYNCHROTRON SSRL BEAMLINE BL9-2 0.8265 SSRL BL9-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.65 27056
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.65 24.3 27060 25624 1391 99.81 0.18951 0.18951 0.18745 0.1864 0.22786 0.2275 RANDOM 28.118
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] 1.01 -0.1 -0.91
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.853 r_dihedral_angle_4_deg 20.403 r_dihedral_angle_3_deg 15.45 r_sphericity_free 6.602 r_scangle_it 6.054 r_sphericity_bonded 5.669 r_scbond_it 4.097 r_dihedral_angle_1_deg 3.927 r_mcangle_it 2.805 r_rigid_bond_restr 2.555
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.853 r_dihedral_angle_4_deg 20.403 r_dihedral_angle_3_deg 15.45 r_sphericity_free 6.602 r_scangle_it 6.054 r_sphericity_bonded 5.669 r_scbond_it 4.097 r_dihedral_angle_1_deg 3.927 r_mcangle_it 2.805 r_rigid_bond_restr 2.555 r_mcbond_it 1.79 r_angle_refined_deg 1.527 r_nbtor_refined 0.32 r_symmetry_vdw_refined 0.254 r_nbd_refined 0.243 r_xyhbond_nbd_refined 0.182 r_symmetry_hbond_refined 0.138 r_chiral_restr 0.094 r_bond_refined_d 0.017 r_gen_planes_refined 0.008 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_mcbond_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1606 Nucleic Acid Atoms Solvent Atoms 173 Heterogen Atoms 62
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling MLPHARE phasing