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Carbohydrate kinase from Agrobacterium tumefaciens
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 291 0.2 M calcium chloride, 7% PEG 3350, 4% MPD, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.59 52.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 75.93 α = 90 b = 75.93 β = 90 c = 103.608 γ = 120
Symmetry Space Group P 32 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD SBC-3 2006-06-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.979 APS 19-BM
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.86 35.7 99.8 0.078 41.3 16.2 29531 29531 38.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.86 1.91 98.5 0.906 2.04 9.2 2372
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 1.86 35.7 29010 29010 2244 98.13 0.1966 0.1966 0.1936 0.2263 0.2331 0.2596 RANDOM 27.708
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] -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.312 r_dihedral_angle_4_deg 16.844 r_dihedral_angle_3_deg 15.348 r_dihedral_angle_1_deg 5.643 r_scangle_it 4.412 r_scbond_it 2.713 r_angle_refined_deg 1.548 r_mcangle_it 1.393 r_mcbond_it 0.809 r_nbtor_refined 0.301
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.312 r_dihedral_angle_4_deg 16.844 r_dihedral_angle_3_deg 15.348 r_dihedral_angle_1_deg 5.643 r_scangle_it 4.412 r_scbond_it 2.713 r_angle_refined_deg 1.548 r_mcangle_it 1.393 r_mcbond_it 0.809 r_nbtor_refined 0.301 r_nbd_refined 0.226 r_symmetry_vdw_refined 0.226 r_symmetry_hbond_refined 0.222 r_xyhbond_nbd_refined 0.178 r_chiral_restr 0.107 r_metal_ion_refined 0.081 r_bond_refined_d 0.017 r_gen_planes_refined 0.006 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_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 Atoms Number Protein Atoms 2268 Nucleic Acid Atoms Solvent Atoms 277 Heterogen Atoms 4
Software Software Software Name Purpose SBC-Collect data collection SHELXD phasing MLPHARE phasing DM model building SOLVE phasing RESOLVE model building HKL-2000 data scaling REFMAC refinement HKL-2000 data reduction HKL-3000 phasing DM phasing RESOLVE phasing