☰ Navigation Tabs
Short chain specific acyl-CoA oxidase from Arabidopsis thaliana, ACX4 in complex with acetoacetyl-CoA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JQI PDB ENTRY 1JQI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.51 10% PEG8000, 0.1 M CACODYLATE PH 6.5, 0.001 M ACETOACETYL-COA, 2% BENZAMIDINE
Crystal Properties Matthews coefficient Solvent content 2.37 48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 144.747 α = 90 b = 144.747 β = 90 c = 149.208 γ = 120
Symmetry Space Group P 32 2 1
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 2005-03-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I711 MAX II I711
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 2.7 20 99.6 0.13 5.3 2.9 142184 56.98
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 2.7 2.85 99.9 0.6 1.2 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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1JQI 2.7 20 47195 2525 99.7 0.189 0.186 0.232 0.1988 RANDOM 36.17
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] -0.13 -0.06 -0.13 0.19
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.57 r_dihedral_angle_3_deg 17.76 r_dihedral_angle_4_deg 17.169 r_dihedral_angle_1_deg 4.714 r_scangle_it 1.235 r_angle_refined_deg 1.166 r_scbond_it 0.718 r_mcangle_it 0.502 r_nbtor_refined 0.302 r_mcbond_it 0.292
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.57 r_dihedral_angle_3_deg 17.76 r_dihedral_angle_4_deg 17.169 r_dihedral_angle_1_deg 4.714 r_scangle_it 1.235 r_angle_refined_deg 1.166 r_scbond_it 0.718 r_mcangle_it 0.502 r_nbtor_refined 0.302 r_mcbond_it 0.292 r_nbd_refined 0.185 r_symmetry_vdw_refined 0.145 r_xyhbond_nbd_refined 0.139 r_symmetry_hbond_refined 0.081 r_chiral_restr 0.077 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_refined 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 12656 Nucleic Acid Atoms Solvent Atoms 164 Heterogen Atoms 404
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing