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Structure of Oryza Sativa (Rice) PLA2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 293 VAPOUR DIFFUSION, 20 DEGREES WELL CONTAINED 0.75ML OF SOLUTION A (16-18% PEG3350, 0.1M BISTRISPROPANE PH 6.5, 0.2M POTASSIUM THIOCYANATE) AND 0.25ML SOLUTION B (0.1M SODIUM ACETATE PH 4.6, 2M SODIUM CHLORIDE)
Crystal Properties Matthews coefficient Solvent content 2.53 50.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 108.667 α = 90 b = 108.667 β = 90 c = 41.652 γ = 120
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 M SINGLE WAVELENGTH 2 1 x-ray IMAGE PLATE M
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 ESRF ID23-2 2 SYNCHROTRON ESRF BEAMLINE BM14 ESRF BM14
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 27 99.7 0.08 13.91 3.4 18175 2
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 98 0.33 1.96 2.9
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 SAD THROUGHOUT NONE 2 27.05 18175 986 99.7 0.187 0.185 0.184 0.23 0.229 RANDOM 23.68
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 0.28 0.55 -0.83
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.039 r_dihedral_angle_3_deg 11.823 r_dihedral_angle_4_deg 8.951 r_dihedral_angle_1_deg 4.372 r_scangle_it 2.516 r_scbond_it 1.511 r_mcangle_it 1.104 r_angle_refined_deg 1.021 r_mcbond_it 0.568 r_nbtor_refined 0.289
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.039 r_dihedral_angle_3_deg 11.823 r_dihedral_angle_4_deg 8.951 r_dihedral_angle_1_deg 4.372 r_scangle_it 2.516 r_scbond_it 1.511 r_mcangle_it 1.104 r_angle_refined_deg 1.021 r_mcbond_it 0.568 r_nbtor_refined 0.289 r_nbd_refined 0.196 r_symmetry_vdw_refined 0.149 r_symmetry_hbond_refined 0.148 r_xyhbond_nbd_refined 0.142 r_metal_ion_refined 0.098 r_chiral_restr 0.063 r_bond_refined_d 0.008 r_gen_planes_refined 0.003 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_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 1801 Nucleic Acid Atoms Solvent Atoms 176 Heterogen Atoms 3
Software Software Software Name Purpose HKL-2000 data reduction HKL-2000 data scaling SHELX phasing MOLREP phasing REFMAC refinement