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Crystal structure of hydroxyquinol 1,2-dioxygenase from Nocardioides Simplex 3E
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 295 Ammonium sulfate, PEG 400, hepes, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.53 51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.283 α = 90 b = 84.978 β = 92.84 c = 83.923 γ = 90
Symmetry Space Group P 1 21 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 mirrors 2001-03-11 M SINGLE WAVELENGTH 2 1 x-ray 100 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 0.908 EMBL/DESY, HAMBURG X11 2 SYNCHROTRON ESRF BEAMLINE BM14 1.738,1.741,1.001 ESRF BM14
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 1,2 1.75 20 94.1 0.046 22.2 4.3 61454 61454 24.36
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) 1.75 1.78 69.6 0.116 6.4
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 MOLECULAR REPLACEMENT THROUGHOUT 1.75 20 59788 56787 3001 91.78 0.1953 0.1953 0.19251 0.1936 0.24661 0.2471 RANDOM 28.639
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] 0.53 -0.55 0.84 -1.43
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.418 r_scangle_it 4.059 r_scbond_it 2.606 r_mcangle_it 1.678 r_angle_refined_deg 1.581 r_mcbond_it 1.002 r_nbd_refined 0.213 r_symmetry_hbond_refined 0.192 r_xyhbond_nbd_refined 0.17 r_symmetry_vdw_refined 0.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.418 r_scangle_it 4.059 r_scbond_it 2.606 r_mcangle_it 1.678 r_angle_refined_deg 1.581 r_mcbond_it 1.002 r_nbd_refined 0.213 r_symmetry_hbond_refined 0.192 r_xyhbond_nbd_refined 0.17 r_symmetry_vdw_refined 0.17 r_chiral_restr 0.12 r_metal_ion_refined 0.033 r_bond_refined_d 0.017 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4421 Nucleic Acid Atoms Solvent Atoms 831 Heterogen Atoms 107
Software Software Software Name Purpose REFMAC refinement MAR345 data collection SCALEPACK data scaling SOLVE phasing