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Crystal structure of histo-aspartic protease (HAP) zymogen from Plasmodium falciparum
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.1 293 20% (w/v) PEG 3350, 0.2M Tri-potassium citrate, pH 8.1, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.37 48.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 121.49 α = 90 b = 68.43 β = 125.84 c = 72.77 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MAR scanner 345 mm plate 2010-07-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE 1.5418
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 1.9 40 98.4 0.102 11.9 5 38417 37803
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 1.9 2 97.1 0.1461 1.2 4.5
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 MOLECULAR REPLACEMENT THROUGHOUT 2.1 36.37 26780 1410 100 0.1863 0.18351 0.1964 0.23936 0.2491 RANDOM 40.768
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] -2.11 -1.33 2.22 -1.67
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.492 r_dihedral_angle_3_deg 20.906 r_dihedral_angle_4_deg 20.627 r_dihedral_angle_1_deg 8.848 r_scangle_it 4.771 r_scbond_it 3.106 r_angle_refined_deg 2.275 r_mcangle_it 1.939 r_mcbond_it 1.083 r_chiral_restr 0.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.492 r_dihedral_angle_3_deg 20.906 r_dihedral_angle_4_deg 20.627 r_dihedral_angle_1_deg 8.848 r_scangle_it 4.771 r_scbond_it 3.106 r_angle_refined_deg 2.275 r_mcangle_it 1.939 r_mcbond_it 1.083 r_chiral_restr 0.21 r_bond_refined_d 0.023 r_gen_planes_refined 0.011 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 2947 Nucleic Acid Atoms Solvent Atoms 242 Heterogen Atoms 20
Software Software Software Name Purpose MAR345dtb data collection PHASER phasing REFMAC refinement XDS data reduction XDS data scaling