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Structure of KDPG Aldolase E45N mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1EUA PDB ENTRY 1EUA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8 0.1M AMMONIUM SULPHATE, 15% PEG4000, 10MM TRIS, PH8.0, pH 8.00
Crystal Properties Matthews coefficient Solvent content 3.6 65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 105.195 α = 90 b = 105.195 β = 90 c = 51.444 γ = 120
Symmetry Space Group P 3 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 IMAGE PLATE RIGAKU RAXIS IV MIRRORS 2004-03-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007
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 2.8 45.55 96.1 0.06 8.5 1.7 15069 1.5
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 2.8 2.87 93.8 0.46 1.6 1.7
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 1EUA 2.8 91.29 7816 380 98.5 0.174 0.171 0.1705 0.246 0.2479 RANDOM 65.16
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] 1.56 0.78 1.56 -2.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.271 r_dihedral_angle_3_deg 21.709 r_dihedral_angle_4_deg 16.093 r_dihedral_angle_1_deg 6.903 r_scangle_it 4.743 r_scbond_it 2.897 r_angle_refined_deg 2.311 r_mcangle_it 1.713 r_mcbond_it 1.001 r_symmetry_vdw_refined 0.569
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.271 r_dihedral_angle_3_deg 21.709 r_dihedral_angle_4_deg 16.093 r_dihedral_angle_1_deg 6.903 r_scangle_it 4.743 r_scbond_it 2.897 r_angle_refined_deg 2.311 r_mcangle_it 1.713 r_mcbond_it 1.001 r_symmetry_vdw_refined 0.569 r_symmetry_hbond_refined 0.441 r_xyhbond_nbd_refined 0.359 r_nbtor_refined 0.324 r_nbd_refined 0.303 r_chiral_restr 0.136 r_bond_refined_d 0.028 r_gen_planes_refined 0.007 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 1565 Nucleic Acid Atoms Solvent Atoms 102 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement d*TREK data reduction SCALA data scaling MOLREP phasing