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Crystal Structure of E18Q DJ-1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1P5F pdb entry 1P5F
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 298 1.5 M sodium citrate, 50 mM HEPES, 10 mM DTT, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.9 57.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.78 α = 90 b = 74.78 β = 90 c = 75.443 γ = 120
Symmetry Space Group P 31 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 ADSC QUANTUM 315 BENT CONICAL Si MIRROR (Rh COATED) 2006-03-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-BM-C 0.9 APS 14-BM-C
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 1.35 30 98.6 0.073 25.2 7.1 53400 53400
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) 1.35 1.4 98.7 0.607 2.3 4.8
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 (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 1P5F 1.35 30 53337 50614 2723 98.54 0.15516 0.15444 0.1522 0.16837 0.165 RANDOM 13.051
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] 0.19 0.09 0.19 -0.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.031 r_dihedral_angle_4_deg 21.942 r_dihedral_angle_3_deg 12.596 r_dihedral_angle_1_deg 6.39 r_scangle_it 4.765 r_scbond_it 3.679 r_mcangle_it 2.647 r_mcbond_it 2.387 r_angle_refined_deg 1.428 r_angle_other_deg 0.817
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.031 r_dihedral_angle_4_deg 21.942 r_dihedral_angle_3_deg 12.596 r_dihedral_angle_1_deg 6.39 r_scangle_it 4.765 r_scbond_it 3.679 r_mcangle_it 2.647 r_mcbond_it 2.387 r_angle_refined_deg 1.428 r_angle_other_deg 0.817 r_symmetry_hbond_refined 0.36 r_mcbond_other 0.32 r_symmetry_vdw_other 0.297 r_xyhbond_nbd_refined 0.29 r_nbd_refined 0.251 r_symmetry_vdw_refined 0.231 r_nbd_other 0.213 r_nbtor_refined 0.175 r_chiral_restr 0.093 r_nbtor_other 0.091 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_gen_planes_other 0.002 r_bond_other_d r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1418 Nucleic Acid Atoms Solvent Atoms 193 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement ADSC data collection HKL-2000 data reduction HKL-2000 data scaling PHASER phasing