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Yeast Oxygen-Dependent Coproporphyrinogen Oxidase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 277 18% PEG 8000, 0.1 M HEPES, 2% isopropanol, 0.2 M sodium acetate, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.3 50
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.822 α = 90 b = 86.822 β = 90 c = 207.835 γ = 90
Symmetry Space Group P 43 21 2
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 ADSC QUANTUM 4 2004-02-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 1.10 NSLS X25
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 30 98.4 0.057 0.057 19 9 51064 34.1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2 2.07 97.5 0.583 0.583 3.2 9.1 5248
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 Chromium sulfur SAD THROUGHOUT 2 79.06 51064 51064 2732 98.39 0.2101 0.2101 0.20757 0.2142 0.25828 0.2602 RANDOM 34.09
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] 1.5 1.5 -2.99
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34 r_dihedral_angle_4_deg 19.944 r_dihedral_angle_3_deg 16.043 r_dihedral_angle_1_deg 7.29 r_scangle_it 3.07 r_scbond_it 2.242 r_mcangle_it 1.696 r_mcbond_it 1.508 r_angle_refined_deg 1.507 r_angle_other_deg 0.898
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34 r_dihedral_angle_4_deg 19.944 r_dihedral_angle_3_deg 16.043 r_dihedral_angle_1_deg 7.29 r_scangle_it 3.07 r_scbond_it 2.242 r_mcangle_it 1.696 r_mcbond_it 1.508 r_angle_refined_deg 1.507 r_angle_other_deg 0.898 r_symmetry_vdw_other 0.26 r_mcbond_other 0.238 r_nbd_refined 0.211 r_symmetry_vdw_refined 0.203 r_nbd_other 0.197 r_symmetry_hbond_refined 0.187 r_nbtor_refined 0.186 r_xyhbond_nbd_refined 0.164 r_chiral_restr 0.099 r_nbtor_other 0.088 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5291 Nucleic Acid Atoms Solvent Atoms 418 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling SOLVE phasing