☰ Navigation Tabs
Crystal Structure of L-rhamnulose kinase from Escherichia coli in complex with L-fructose, ADP and a modeled ATP gamma phosphate.
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 = 50.781 α = 90 b = 50.966 β = 90 c = 158.102 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 2005-09-26 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 0.9793, 0.9795, 0.9686 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 1.88 79 95.8 0.06 16.7 5.2 61818
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 1.88 1.93 72.9 0.33 3.9 3.3
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 (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1.88 48.34 31242 1644 95.9 0.169 0.167 0.209 0.2417 RANDOM 24.36
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] 0.41 -0.19 -0.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.825 r_dihedral_angle_4_deg 19.645 r_dihedral_angle_3_deg 16.225 r_dihedral_angle_1_deg 5.987 r_scangle_it 3.402 r_scbond_it 2.314 r_angle_refined_deg 1.529 r_mcangle_it 1.399 r_mcbond_it 0.97 r_nbtor_refined 0.307
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.825 r_dihedral_angle_4_deg 19.645 r_dihedral_angle_3_deg 16.225 r_dihedral_angle_1_deg 5.987 r_scangle_it 3.402 r_scbond_it 2.314 r_angle_refined_deg 1.529 r_mcangle_it 1.399 r_mcbond_it 0.97 r_nbtor_refined 0.307 r_symmetry_vdw_refined 0.239 r_symmetry_hbond_refined 0.233 r_nbd_refined 0.208 r_xyhbond_nbd_refined 0.148 r_chiral_restr 0.097 r_bond_refined_d 0.015 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_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 192 Heterogen Atoms 43
Software Software Software Name Purpose autoSHARP model building XSCALE data scaling SHELXD phasing SHELXE phasing SHARP phasing autoSHARP phasing REFMAC refinement