☰ Navigation Tabs
Crystal structure of a bacterial arylsulfate sulfotransferase catalytic intermediate with 4-nitrophenol bound in the active site
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3ELQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 1.8M lithium sulfate, 0.1M sodium cacodylate, pH 6.50, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.75 67.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 181.503 α = 90 b = 181.503 β = 90 c = 99.984 γ = 120
Symmetry Space Group P 32 1 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 PIXEL PSI PILATUS 6M 2008-04-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 50 99.6 0.094 0.08 18.1 3.8 108768 108768 1 2.994 30.47
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.1 2.21 99.6 0.54 0.46 2.4 3.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 3ELQ 2.1 33.98 2 106194 106194 1769 99.6 0.188 0.188 0.187 0.192 0.232 0.2369 RANDOM 29.37
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] -2.76 -1.38 -2.76 4.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.191 r_dihedral_angle_4_deg 14.993 r_dihedral_angle_3_deg 13.537 r_dihedral_angle_1_deg 6.951 r_scangle_it 4.312 r_scbond_it 3.445 r_mcangle_it 2.087 r_mcbond_it 1.93 r_angle_refined_deg 1.647 r_angle_other_deg 1.164
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.191 r_dihedral_angle_4_deg 14.993 r_dihedral_angle_3_deg 13.537 r_dihedral_angle_1_deg 6.951 r_scangle_it 4.312 r_scbond_it 3.445 r_mcangle_it 2.087 r_mcbond_it 1.93 r_angle_refined_deg 1.647 r_angle_other_deg 1.164 r_mcbond_other 1.005 r_symmetry_vdw_refined 0.248 r_nbd_refined 0.23 r_symmetry_vdw_other 0.228 r_nbd_other 0.223 r_nbtor_refined 0.186 r_symmetry_hbond_refined 0.166 r_xyhbond_nbd_refined 0.147 r_chiral_restr 0.104 r_nbtor_other 0.089 r_bond_refined_d 0.021 r_bond_other_d 0.015 r_gen_planes_refined 0.008 r_gen_planes_other 0.006 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8919 Nucleic Acid Atoms Solvent Atoms 754 Heterogen Atoms 50
Software Software Software Name Purpose RemDAq data collection PHASER phasing REFMAC refinement MOSFLM data reduction SCALA data scaling