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Crystal Structure of L-rhamnulose kinase from Escherichia coli in complex with L-fructose and ADP.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 17% PEG 8000, 120 MM LICL
Crystal Properties Matthews coefficient Solvent content 1.9 35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.729 α = 90 b = 51.305 β = 90 c = 159.263 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 CCD MARRESEARCH 2005-09-06 M SINGLE WAVELENGTH 2 1 x-ray
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 BESSY 14.1 2 SYNCHROTRON SLS BEAMLINE X06SA SLS X06SA
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 2.26 49 99.2 0.07 7.4 7.6 20321
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 2.26 2.34 94.1 0.55 3.7 4.8
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.26 49.21 19305 1017 99.2 0.208 0.206 0.1993 0.25 0.2418 RANDOM 56.79
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] 2.29 -0.84 -1.45
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.182 r_dihedral_angle_3_deg 15.731 r_dihedral_angle_4_deg 14.719 r_dihedral_angle_1_deg 4.947 r_scangle_it 1.034 r_angle_refined_deg 1.027 r_scbond_it 0.63 r_mcangle_it 0.568 r_mcbond_it 0.325 r_nbtor_refined 0.294
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.182 r_dihedral_angle_3_deg 15.731 r_dihedral_angle_4_deg 14.719 r_dihedral_angle_1_deg 4.947 r_scangle_it 1.034 r_angle_refined_deg 1.027 r_scbond_it 0.63 r_mcangle_it 0.568 r_mcbond_it 0.325 r_nbtor_refined 0.294 r_nbd_refined 0.174 r_symmetry_vdw_refined 0.167 r_symmetry_hbond_refined 0.127 r_xyhbond_nbd_refined 0.118 r_chiral_restr 0.062 r_bond_refined_d 0.008 r_gen_planes_refined 0.002 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_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 3707 Nucleic Acid Atoms Solvent Atoms 188 Heterogen Atoms 39
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling CCP4 phasing