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G6 mutant of PAS, arylsulfatase from Pseudomonas Aeruginosa, in complex with Phenylphosphonic acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1HDH PDB ENTRY 1HDH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.3 0.1 M MES PH 6.3, 26.5 % (W/V) PEG 5000 MME, 0.22 M AMMONIUM SULFATE
Crystal Properties Matthews coefficient Solvent content 2.33 47.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 186.965 α = 90 b = 66.702 β = 94.04 c = 89.645 γ = 90
Symmetry Space Group C 1 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 CCD MIRRORS 2012-02-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 Diamond I04
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 1.88 66.94 98.1 0.13 9.8 3.7 88274 -3 14
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 1.88 1.88 96.8 0.65 2.1 3.8
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 1HDH 1.88 93.25 84406 3863 98.11 0.17867 0.17687 0.1873 0.21475 0.2202 RANDOM 17.773
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] 1.12 -0.45 0.66 -1.7
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.025 r_dihedral_angle_4_deg 20.291 r_dihedral_angle_3_deg 13.687 r_dihedral_angle_1_deg 6.532 r_scangle_it 3.372 r_mcangle_it 2.511 r_scbond_it 2.146 r_angle_refined_deg 1.777 r_mcbond_it 1.601 r_mcbond_other 1.598
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.025 r_dihedral_angle_4_deg 20.291 r_dihedral_angle_3_deg 13.687 r_dihedral_angle_1_deg 6.532 r_scangle_it 3.372 r_mcangle_it 2.511 r_scbond_it 2.146 r_angle_refined_deg 1.777 r_mcbond_it 1.601 r_mcbond_other 1.598 r_angle_other_deg 1.073 r_chiral_restr 0.115 r_bond_refined_d 0.018 r_gen_planes_refined 0.011 r_bond_other_d 0.005 r_gen_planes_other 0.004 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_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 8408 Nucleic Acid Atoms Solvent Atoms 876 Heterogen Atoms 65
Software Software Software Name Purpose REFMAC refinement autoPROC data reduction XDS data reduction Aimless data scaling AMoRE phasing