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Crystal structure of SdsA1, an alkylsulfatase from Pseudomonas aeruginosa, in complex with sulfate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2CG3 PDB ENTRY 2CG3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6 12% PEG4000, 10% ISOPROPANOL, 0.2M LICL, 0.1M CITRATE PH6, pH 6.00
Crystal Properties Matthews coefficient Solvent content 2.7 54.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 85.662 α = 90 b = 85.662 β = 90 c = 364.13 γ = 120
Symmetry Space Group P 65 2 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 MARRESEARCH 2005-07-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X13 EMBL/DESY, HAMBURG X13
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 2.1 30 98.7 0.1 15 5.5 46750 3 22.1
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 2.1 2.2 99.4 0.27 6 6.3
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 2CG3 2.1 74.12 44374 2375 98.9 0.168 0.166 0.1708 0.213 0.218 RANDOM 24.86
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] -0.07 -0.03 -0.07 0.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.312 r_dihedral_angle_4_deg 20.834 r_dihedral_angle_3_deg 14.695 r_dihedral_angle_1_deg 6.088 r_scangle_it 3.397 r_scbond_it 2.222 r_angle_refined_deg 1.416 r_mcangle_it 1.297 r_mcbond_it 0.838 r_nbtor_refined 0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.312 r_dihedral_angle_4_deg 20.834 r_dihedral_angle_3_deg 14.695 r_dihedral_angle_1_deg 6.088 r_scangle_it 3.397 r_scbond_it 2.222 r_angle_refined_deg 1.416 r_mcangle_it 1.297 r_mcbond_it 0.838 r_nbtor_refined 0.31 r_nbd_refined 0.204 r_symmetry_vdw_refined 0.196 r_symmetry_hbond_refined 0.196 r_xyhbond_nbd_refined 0.155 r_chiral_restr 0.097 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_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 4923 Nucleic Acid Atoms Solvent Atoms 421 Heterogen Atoms 7
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling