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Crystal structure of nucleoside triphosphate hydrolases from Neospora caninum
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP vapor diffusion, sitting drop
Crystal Properties Matthews coefficient Solvent content 3.74 67.07
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 93.664 α = 90 b = 140.776 β = 90 c = 301.067 γ = 90
Symmetry Space Group I 2 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 Bruker DIP-6040 2009-07-12 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD RAYONIX MX225HE 2009-07-19 M SINGLE WAVELENGTH 3 1 x-ray 100 CCD ADSC QUANTUM 270 2009-05-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.97904 SPring-8 BL44XU 2 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 1.00000 SPring-8 BL41XU 3 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-17A 1.00000 Photon Factory BL-17A
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 2.8 50 93.5 0.06 40.387 5.7 46635
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 2.8 2.9 94.9 0.552 3.89 5.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 2.8 42.51 43724 2354 93.17 0.22994 0.22807 0.2195 0.26508 0.2567 RANDOM 92.053
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] 0.64 0.89 -1.53
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.84 r_dihedral_angle_3_deg 19.758 r_dihedral_angle_4_deg 16.829 r_dihedral_angle_1_deg 5.644 r_scangle_it 1.769 r_mcangle_it 1.218 r_angle_refined_deg 1.161 r_scbond_it 0.988 r_mcbond_it 0.662 r_chiral_restr 0.086
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.84 r_dihedral_angle_3_deg 19.758 r_dihedral_angle_4_deg 16.829 r_dihedral_angle_1_deg 5.644 r_scangle_it 1.769 r_mcangle_it 1.218 r_angle_refined_deg 1.161 r_scbond_it 0.988 r_mcbond_it 0.662 r_chiral_restr 0.086 r_bond_refined_d 0.008 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9172 Nucleic Acid Atoms Solvent Atoms 7 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling DM phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection SOLVE phasing