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Crystal structure of C-terminal domain (RV) of MpAFP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 4.6 298 Calcium chloride, Sodium acetate, PEG 400
Crystal Properties Matthews coefficient Solvent content 1.41 12.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.96 α = 90 b = 43.34 β = 90 c = 78.84 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 93 CCD RAYONIX MX-300 2016-02-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.97949 CLSI 08ID-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.23 43.35 78 10.5 8.2 27687
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 THROUGHOUT 1.35 39.42 23810 1254 92.67 0.12795 0.12531 0.1289 0.17709 0.176 RANDOM 18.322
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] 1.11 -0.96 -0.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.3 r_sphericity_free 32.917 r_dihedral_angle_3_deg 13.947 r_sphericity_bonded 11.841 r_dihedral_angle_1_deg 6.879 r_rigid_bond_restr 4.908 r_long_range_B_refined 4.899 r_long_range_B_other 4.183 r_scangle_other 4.18 r_scbond_it 3.62
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.3 r_sphericity_free 32.917 r_dihedral_angle_3_deg 13.947 r_sphericity_bonded 11.841 r_dihedral_angle_1_deg 6.879 r_rigid_bond_restr 4.908 r_long_range_B_refined 4.899 r_long_range_B_other 4.183 r_scangle_other 4.18 r_scbond_it 3.62 r_scbond_other 3.614 r_mcangle_it 2.789 r_mcangle_other 2.788 r_angle_refined_deg 2.357 r_mcbond_it 2.277 r_mcbond_other 2.241 r_angle_other_deg 1.207 r_chiral_restr 0.18 r_bond_refined_d 0.029 r_gen_planes_refined 0.011 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_dihedral_angle_4_deg 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1001 Nucleic Acid Atoms Solvent Atoms 181 Heterogen Atoms 8
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing