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Structure of Human Sts-1 histidine phosphatase domain with sulfate bound
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2H0Q
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 291 22 - 25% PEG 2000 MME
200 mM Ammonium Sulfate
0.1 M Sodium Acetate
Crystal Properties Matthews coefficient Solvent content 2.17 43.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.64 α = 90 b = 79.16 β = 90 c = 105.102 γ = 90
Symmetry Space Group P 21 21 21
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-F 2016-04-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-C 0.97910 APS 24-ID-C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 1.87 50 94.4 0.077 0.086 0.037 4.9 5.1 41518
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.87 1.9 77.7 0.203 0.232 0.109 0.973 4.1
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 2H0Q 1.87 50 39429 2033 94.24 0.19655 0.19424 0.2035 0.24101 0.2456 RANDOM 20.628
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] -2.69 4.72 -2.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.304 r_dihedral_angle_4_deg 20.881 r_dihedral_angle_3_deg 12.398 r_dihedral_angle_1_deg 5.4 r_long_range_B_refined 4.294 r_long_range_B_other 4.125 r_scangle_other 1.593 r_mcangle_it 1.512 r_mcangle_other 1.512 r_angle_refined_deg 1.115
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.304 r_dihedral_angle_4_deg 20.881 r_dihedral_angle_3_deg 12.398 r_dihedral_angle_1_deg 5.4 r_long_range_B_refined 4.294 r_long_range_B_other 4.125 r_scangle_other 1.593 r_mcangle_it 1.512 r_mcangle_other 1.512 r_angle_refined_deg 1.115 r_scbond_it 1.03 r_scbond_other 0.955 r_mcbond_it 0.879 r_mcbond_other 0.877 r_angle_other_deg 0.761 r_chiral_restr 0.065 r_bond_refined_d 0.006 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4140 Nucleic Acid Atoms Solvent Atoms 336 Heterogen Atoms 80
Software Software Software Name Purpose REFMAC refinement d*TREK data scaling HKL-2000 data scaling MOLREP phasing PDB_EXTRACT data extraction d*TREK data reduction DENZO data reduction SCALEPACK data scaling