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G4 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 0.1M MES PH=6.3, 32% W/V PEG5000 MME, 0.002 M (NH4)2SO4, 0.039 M PHENYLPHOSPHONIC ACID
Crystal Properties Matthews coefficient Solvent content 2.38 48.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 183.528 α = 90 b = 66.183 β = 93.69 c = 89.338 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 PIXEL DECTRIS PILATUS 6M 2013-03-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I24 Diamond I24
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 2.3 39.1 98.3 0.14 7.2 3.4 46978 -3 31
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 2.3 2.31 82.4 0.58 1.7 3.5
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 2.3 91.57 44589 2376 98.28 0.20542 0.20335 0.2105 0.24379 0.2507 RANDOM 23.813
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] 0.22 -0.06 0.92 -1.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.308 r_dihedral_angle_4_deg 18.961 r_dihedral_angle_3_deg 15.589 r_dihedral_angle_1_deg 6.69 r_mcangle_it 2.914 r_scbond_it 2.064 r_mcbond_it 1.774 r_mcbond_other 1.774 r_angle_refined_deg 1.712 r_angle_other_deg 0.969
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.308 r_dihedral_angle_4_deg 18.961 r_dihedral_angle_3_deg 15.589 r_dihedral_angle_1_deg 6.69 r_mcangle_it 2.914 r_scbond_it 2.064 r_mcbond_it 1.774 r_mcbond_other 1.774 r_angle_refined_deg 1.712 r_angle_other_deg 0.969 r_chiral_restr 0.105 r_bond_refined_d 0.015 r_gen_planes_refined 0.008 r_bond_other_d 0.003 r_gen_planes_other 0.003 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_it 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 8196 Nucleic Acid Atoms Solvent Atoms 224 Heterogen Atoms 62
Software Software Software Name Purpose REFMAC refinement autoPROC data reduction XDS data reduction Aimless data scaling PHASER phasing