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L-RHAMNULOSE-1-PHOSPHATE ALDOLASE FROM ESCHERICHIA COLI (MUTANT A88F- E192A)
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 4.9 25% (V/V) 1,2-PROPANEDIOL, 10% (V/V) GLYCEROL, 5% (W/V) PEG 3000, PHOSPHATE-CITRATE BUFFER (0.1M, PH 4.2)
Crystal Properties Matthews coefficient Solvent content 3.2 61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 168.379 α = 90 b = 106.417 β = 126.76 c = 106.564 γ = 90
Symmetry Space Group C 1 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 MARRESEARCH 2003-10-15 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 1.4 51 91 0.08 7.25 2.3 268317 2.88
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 1.4 94.4 0.34 2.88 2.2
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 1.4 51.03 249534 18783 91.2 0.167 0.166 0.1757 0.187 0.1955 RANDOM 7.11
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] 0.02 -0.1 -0.08 -0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.898 r_dihedral_angle_4_deg 14.535 r_dihedral_angle_3_deg 12.866 r_dihedral_angle_1_deg 5.297 r_scangle_it 1.917 r_scbond_it 1.34 r_angle_refined_deg 1.175 r_angle_other_deg 0.878 r_mcangle_it 0.843 r_mcbond_it 0.589
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.898 r_dihedral_angle_4_deg 14.535 r_dihedral_angle_3_deg 12.866 r_dihedral_angle_1_deg 5.297 r_scangle_it 1.917 r_scbond_it 1.34 r_angle_refined_deg 1.175 r_angle_other_deg 0.878 r_mcangle_it 0.843 r_mcbond_it 0.589 r_symmetry_vdw_refined 0.48 r_symmetry_vdw_other 0.281 r_symmetry_hbond_refined 0.269 r_nbd_refined 0.227 r_nbd_other 0.185 r_nbtor_refined 0.178 r_xyhbond_nbd_refined 0.125 r_nbtor_other 0.084 r_chiral_restr 0.063 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_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 8504 Nucleic Acid Atoms Solvent Atoms 1210 Heterogen Atoms 176
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling MOLREP phasing