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L-RHAMNULOSE-1-PHOSPHATE ALDOLASE FROM ESCHERICHIA COLI (MUTANT K15W)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1OJR PDB ENTRY 1OJR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4.5 100 MM SODIUM ACETATE PH 4.5, 50% (V/V) ETHYLENEGLYCOL, 5% (V/V) PEG 1000
Crystal Properties Matthews coefficient Solvent content 2.8 56.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.873 α = 90 b = 82.873 β = 90 c = 98.109 γ = 90
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 2003-10-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 EMBL/DESY, HAMBURG X11
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 50 100 0.08 12.29 4.26 44803 4.17
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 2.1 100 0.04 4.17 4.24
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 PDB ENTRY 1OJR 2 42.22 41666 3137 100 0.164 0.161 0.1602 0.197 0.1772 RANDOM 24.29
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] 0.3 0.3 -0.59
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.551 r_dihedral_angle_3_deg 12.656 r_dihedral_angle_4_deg 12.318 r_dihedral_angle_1_deg 5.615 r_scangle_it 3.154 r_scbond_it 2.13 r_angle_refined_deg 1.351 r_mcangle_it 1.316 r_mcbond_it 0.827 r_nbtor_refined 0.301
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.551 r_dihedral_angle_3_deg 12.656 r_dihedral_angle_4_deg 12.318 r_dihedral_angle_1_deg 5.615 r_scangle_it 3.154 r_scbond_it 2.13 r_angle_refined_deg 1.351 r_mcangle_it 1.316 r_mcbond_it 0.827 r_nbtor_refined 0.301 r_nbd_refined 0.204 r_symmetry_vdw_refined 0.178 r_symmetry_hbond_refined 0.164 r_xyhbond_nbd_refined 0.156 r_metal_ion_refined 0.147 r_chiral_restr 0.094 r_symmetry_metal_ion_refined 0.073 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_other r_symmetry_vdw_other r_symmetry_hbond_other 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 4258 Nucleic Acid Atoms Solvent Atoms 365 Heterogen Atoms 45
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling CNS phasing