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Soybean Lipoxygenase (LOX-3) at ambient temperatures at 2.0 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1NO3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.3 295 20% PEG 8000, citrate-phosphate buffer 0.05M, tris.HCl, 0.2% sodium azide, pH 5.3, VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.45 49.84
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 112.709 α = 90 b = 137.211 β = 95.51 c = 61.792 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 295 IMAGE PLATE RIGAKU RAXIS II graphite monochromator 1997-11-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.5418
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 99 86.2 0.079 13.5 2 62944 54258 1 40.6
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 2.07 0.767 0.445 1.47 1 4817
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1NO3 2 10 62448 53997 2744 86.47 0.18155 0.18155 0.17893 0.1813 0.23059 0.2312 RANDOM 25.957
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] 0.55 0.88 0.66 -1.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.939 r_scangle_it 4.325 r_scbond_it 2.898 r_angle_refined_deg 1.878 r_mcangle_it 1.778 r_mcbond_it 1.044 r_symmetry_hbond_refined 0.24 r_xyhbond_nbd_refined 0.218 r_nbd_refined 0.158 r_chiral_restr 0.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.939 r_scangle_it 4.325 r_scbond_it 2.898 r_angle_refined_deg 1.878 r_mcangle_it 1.778 r_mcbond_it 1.044 r_symmetry_hbond_refined 0.24 r_xyhbond_nbd_refined 0.218 r_nbd_refined 0.158 r_chiral_restr 0.13 r_symmetry_vdw_refined 0.123 r_bond_refined_d 0.016 r_gen_planes_refined 0.011 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6789 Nucleic Acid Atoms Solvent Atoms 549 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement bioteX data reduction SCALEPACK data scaling X-PLOR phasing