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STRUCTURE OF CYANASE WITH THE DI-ANION OXALATE BOUND AT THE ENZYME ACTIVE SITE
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DW9 PDB ENTRY 1DW9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.3 SELENOMETHIONINE LABELLED CRYSTALS WERE GROWN BY THE SITTING DROP METHOD OF VAPOUR DIFFUSION FROM 50% AMMONIUM SULPHATE SOLUTIONS BUFFERED WITH 50MM NAKPO4, PH = 7.3, AND IN THE PRESENCE OF 50 MM TRIC/HCL, PH =7.3. MICROSEEDING WITH WILD-TYPE CRYSTALS PRODUCED CRYSTALS THAT GREW TO 0.1 X 0.2 X 0.7 MM**3 OVER 5-7 DAYS. CRYSTALS WERE THEN SOAKED FOR 4 HOURS IN 5 MM SODIUM OXALATE BEFORE BEING FLASH FROZEN.
Crystal Properties Matthews coefficient Solvent content 2.53 51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.33 α = 70.1 b = 80.93 β = 71.95 c = 82.13 γ = 66.42
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 ARGONNE APS-1 MIRROR 1998-11-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID APS 19-ID
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 1.65 20 95.4 0.047 26.4 2.3 190231 13.4
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) 1 1.65 1.68 79.4 0.171 3.9 1.9
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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1DW9 1.65 20 190161 9561 95.4 0.138 0.146 0.1427 0.181 0.147 RANDOM 15.8
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]
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 20.2 p_staggered_tor 12.7 p_planar_tor 6.6 p_scangle_it 3.22 p_scbond_it 2.41 p_mcangle_it 1.79 p_mcbond_it 1.38 p_multtor_nbd 0.258 p_singtor_nbd 0.186 p_chiral_restr 0.155
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 20.2 p_staggered_tor 12.7 p_planar_tor 6.6 p_scangle_it 3.22 p_scbond_it 2.41 p_mcangle_it 1.79 p_mcbond_it 1.38 p_multtor_nbd 0.258 p_singtor_nbd 0.186 p_chiral_restr 0.155 p_planar_d 0.035 p_angle_d 0.032 p_bond_d 0.018 p_plane_restr 0.015 p_angle_deg p_hb_or_metal_coord p_xhyhbond_nbd p_xyhbond_nbd p_orthonormal_tor p_special_tor
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11970 Nucleic Acid Atoms Solvent Atoms 2464 Heterogen Atoms 145
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling CCP4 phasing