☰ Navigation Tabs
Crystal Structure of Human Glycolate Oxidase in Complex with Sulfate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GOX PDB ENTRY 1GOX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 298 HEPES,PEG 600, Li2SO4, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.34 63.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 143.649 α = 90 b = 143.649 β = 90 c = 110.461 γ = 90
Symmetry Space Group I 4 2 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 2006-05-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X4A 0.9793 NSLS X4A
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 1.95 28.17 92.3 0.05 18.9 4.83 38911 3
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 1.95 2.02 86.6 0.225 4.2 2.62 3597
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 1GOX 1.95 27.77 38909 1971 92.27 0.199 0.197 0.1959 0.235 0.2292 RANDOM 15.698
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] -0.16 -0.16 0.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.863 r_dihedral_angle_4_deg 17.143 r_dihedral_angle_3_deg 16.903 r_dihedral_angle_1_deg 6.034 r_scangle_it 3.025 r_scbond_it 1.964 r_angle_refined_deg 1.6 r_mcangle_it 1.082 r_mcbond_it 0.755 r_nbtor_refined 0.305
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.863 r_dihedral_angle_4_deg 17.143 r_dihedral_angle_3_deg 16.903 r_dihedral_angle_1_deg 6.034 r_scangle_it 3.025 r_scbond_it 1.964 r_angle_refined_deg 1.6 r_mcangle_it 1.082 r_mcbond_it 0.755 r_nbtor_refined 0.305 r_nbd_refined 0.205 r_symmetry_vdw_refined 0.19 r_symmetry_hbond_refined 0.183 r_xyhbond_nbd_refined 0.149 r_chiral_restr 0.13 r_bond_refined_d 0.014 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2794 Nucleic Acid Atoms Solvent Atoms 220 Heterogen Atoms 36
Software Software Software Name Purpose d*TREK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection d*TREK data reduction