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Crystal structure of inorganic phosphatase from anaplasma phagocytophilum at 1.75a resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3FQ3 PDB ENTRY 3FQ3 MODIFIED WITH CCP4 PROGRAM CHAINSAW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.2 290 JCSG+ SCREEN CONDITION C6: 100MM PHOSPHATE/CITRATE PH 4.2, 40% PEG 300; ANPHA.01382.A AT 45MG/ ML, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290K
Crystal Properties Matthews coefficient Solvent content 2.36 47.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 135.38 α = 90 b = 135.38 β = 90 c = 135.38 γ = 90
Symmetry Space Group I 21 3
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 QUANTUM 315r Single crystal, cylindrically bent, Si(220) 2009-10-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.3 0.9765 ALS 5.0.3
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 1.75 20 99.5 0.048 30.24 10.5 41592 41385 -3 30.82
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 1.75 1.8 99.9 0.529 3.7 8.8 3040
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 PDB ENTRY 3FQ3 MODIFIED WITH CCP4 PROGRAM CHAINSAW 1.75 19.96 41592 41385 2062 99.6 0.161 0.161 0.16 0.171 0.182 0.1886 RANDOM 12.61
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.905 r_dihedral_angle_4_deg 21.809 r_dihedral_angle_3_deg 12.697 r_dihedral_angle_1_deg 5.646 r_scangle_it 3.793 r_scbond_it 2.322 r_mcangle_it 1.678 r_angle_refined_deg 1.361 r_mcbond_it 0.923 r_angle_other_deg 0.883
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.905 r_dihedral_angle_4_deg 21.809 r_dihedral_angle_3_deg 12.697 r_dihedral_angle_1_deg 5.646 r_scangle_it 3.793 r_scbond_it 2.322 r_mcangle_it 1.678 r_angle_refined_deg 1.361 r_mcbond_it 0.923 r_angle_other_deg 0.883 r_mcbond_other 0.22 r_chiral_restr 0.088 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2597 Nucleic Acid Atoms Solvent Atoms 256 Heterogen Atoms 10
Software Software Software Name Purpose BOS data collection PHASER phasing REFMAC refinement XDS data reduction XSCALE data scaling