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Crystal structure of the dihydroxyacetone kinase of C. freundii (native form)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 pH 7.50
Crystal Properties Matthews coefficient Solvent content 3.2 61.54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.44 α = 90 b = 124.59 β = 90 c = 237.12 γ = 90
Symmetry Space Group C 2 2 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 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM1A ESRF BM1A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.5 25 96.8 0.066 14.4 3.8 50187 2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 2.5 19.92 46053 3976 100 0.2 0.196 0.246 RANDOM 29.42
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] -2.4 7.13 -4.73
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 4.447 r_scbond_it 3.131 r_mcangle_it 2.972 r_dihedral_angle_1_deg 2.552 r_mcbond_it 1.794 r_angle_refined_deg 1.434 r_nbd_refined 0.262 r_symmetry_vdw_refined 0.247 r_symmetry_hbond_refined 0.188 r_xyhbond_nbd_refined 0.164
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 4.447 r_scbond_it 3.131 r_mcangle_it 2.972 r_dihedral_angle_1_deg 2.552 r_mcbond_it 1.794 r_angle_refined_deg 1.434 r_nbd_refined 0.262 r_symmetry_vdw_refined 0.247 r_symmetry_hbond_refined 0.188 r_xyhbond_nbd_refined 0.164 r_chiral_restr 0.12 r_bond_refined_d 0.011 r_gen_planes_refined 0.001 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7976 Nucleic Acid Atoms Solvent Atoms 211 Heterogen Atoms 84
Software Software Software Name Purpose REFMAC refinement