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Structure of the M1 Alanylaminopeptidase from malaria
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 298 22% (v/v) PEG 8000, 10% (v/v) glycerol, 0.1 M Tris (pH 8.5), 0.2 M MgCl2, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.35 47.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 75.656 α = 90 b = 108.684 β = 90 c = 118.399 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 IMAGE PLATE RIGAKU RAXIS IV OSMIC MIRRORS 2007-10-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE ELLIOTT GX-13
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 2.1 34.6 95.5 0.071 2.7 53946
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 2.1 2.21 82.3 0.34 2.3 2.2
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 34.6 53946 2863 98.51 0.17279 0.17026 0.1707 0.22034 0.2238 RANDOM 17.832
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] -0.22 -0.56 0.78
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.231 r_dihedral_angle_4_deg 17.183 r_dihedral_angle_3_deg 13.414 r_dihedral_angle_1_deg 5.775 r_scangle_it 2.052 r_scbond_it 1.306 r_angle_refined_deg 1.134 r_mcangle_it 0.791 r_mcbond_it 0.488 r_nbtor_refined 0.298
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.231 r_dihedral_angle_4_deg 17.183 r_dihedral_angle_3_deg 13.414 r_dihedral_angle_1_deg 5.775 r_scangle_it 2.052 r_scbond_it 1.306 r_angle_refined_deg 1.134 r_mcangle_it 0.791 r_mcbond_it 0.488 r_nbtor_refined 0.298 r_nbd_refined 0.185 r_symmetry_vdw_refined 0.154 r_xyhbond_nbd_refined 0.132 r_symmetry_hbond_refined 0.13 r_chiral_restr 0.079 r_metal_ion_refined 0.07 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other 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 7177 Nucleic Acid Atoms Solvent Atoms 762 Heterogen Atoms 33
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection