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The Crystal Structure of the Complex between Stearoyl Acyl Carrier Protein Desaturase from Ricinus Communis (Castor Bean) and Azide.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1AFR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.2 293 70mM Sodium Azide, 12-15% Peg4000, 80mM Cacodylate, 200 mM Magnesium Acetate, 75mM Ammonium Sulphate, 0.2% Octyl glucoside and water exchanged for 20% MPD for freezing, pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.37 47.76
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.774 α = 90 b = 145.21 β = 90 c = 192.88 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 110 IMAGE PLATE MARRESEARCH 1998-10-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I711 0.986 MAX II I711
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.4 25 99.4 0.057 14.8 90664 90115 -3 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.4 2.46 97.9 0.299
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1AFR 2.4 24.92 90664 87879 2236 99.39 0.22888 0.22888 0.22856 0.24158 0.3202 RANDOM 12.646
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] -1.76 -0.68 2.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 4.971 r_scangle_it 2.523 r_scbond_it 1.562 r_angle_refined_deg 1.116 r_mcangle_it 0.748 r_symmetry_hbond_refined 0.44 r_symmetry_vdw_refined 0.398 r_mcbond_it 0.365 r_nbd_refined 0.208 r_xyhbond_nbd_refined 0.152
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 4.971 r_scangle_it 2.523 r_scbond_it 1.562 r_angle_refined_deg 1.116 r_mcangle_it 0.748 r_symmetry_hbond_refined 0.44 r_symmetry_vdw_refined 0.398 r_mcbond_it 0.365 r_nbd_refined 0.208 r_xyhbond_nbd_refined 0.152 r_chiral_restr 0.077 r_bond_refined_d 0.01 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 16837 Nucleic Acid Atoms Solvent Atoms 368 Heterogen Atoms 30
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing