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Crystal structure of Acireductone dioxygenase (13543033) from Mus musculus at 2.06 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION,SITTING DROP,NANODROP 5.6 277 5.0% Glycerol, 19.0% iso-Propanol, 19.0% PEG-4000, 0.1M Citrate pH 5.6, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.71 66.57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.136 α = 90 b = 79.136 β = 90 c = 114.128 γ = 90
Symmetry Space Group P 41 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 fixed-height exit beam, toroidal focusing mirror 2004-11-10 M MAD 2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.2 0.979735,0.979562,0.956885 ALS 5.0.2
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 2.06 28.54 100 0.101 13.6 6.8 23148 43.37
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 2.06 2.17 100 0.864 2.2 5.4 3314
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MAD THROUGHOUT 2.06 28.53 21908 1183 99.94 0.16387 0.16229 0.1748 0.19532 0.2077 RANDOM 37.722
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] -0.48 -0.48 0.96
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.216 r_dihedral_angle_3_deg 13.935 r_dihedral_angle_4_deg 11.433 r_scangle_it 8.382 r_dihedral_angle_1_deg 6.425 r_scbond_it 6.033 r_mcangle_it 3.504 r_mcbond_it 2.887 r_angle_refined_deg 1.436 r_angle_other_deg 0.799
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.216 r_dihedral_angle_3_deg 13.935 r_dihedral_angle_4_deg 11.433 r_scangle_it 8.382 r_dihedral_angle_1_deg 6.425 r_scbond_it 6.033 r_mcangle_it 3.504 r_mcbond_it 2.887 r_angle_refined_deg 1.436 r_angle_other_deg 0.799 r_mcbond_other 0.6 r_symmetry_vdw_other 0.25 r_nbd_refined 0.214 r_xyhbond_nbd_refined 0.202 r_nbd_other 0.196 r_nbtor_refined 0.188 r_symmetry_hbond_refined 0.153 r_symmetry_vdw_refined 0.107 r_nbtor_other 0.085 r_chiral_restr 0.083 r_bond_refined_d 0.018 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1484 Nucleic Acid Atoms Solvent Atoms 169 Heterogen Atoms 14
Software Software Software Name Purpose XDS data scaling SCALA data scaling autoSHARP phasing REFMAC refinement XDS data reduction CCP4 data scaling