☰ Navigation Tabs
Plasmodium Purine Nucleoside Phosphorylase V66I-V73I-Y160F Mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1NW4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 292.15 0.2 M Magnesium chloride, 0.1 M HEPES sodium pH 7.5, 30% v/v 2-Propanol, VAPOR DIFFUSION, SITTING DROP, temperature 292.15K
Crystal Properties Matthews coefficient Solvent content 4.43 72.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 234.969 α = 90 b = 234.969 β = 90 c = 234.969 γ = 90
Symmetry Space Group I 41 3 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 110 CCD ADSC QUANTUM 315 2008-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A NSLS X29A
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 2.8 50 0.117 13.3 27430 59.4
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 2.8 2.9 0.57 3.3 7.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 1NW4 2.8 35.42 25982 1376 99.9 0.167 0.165 0.1636 0.202 0.1991 RANDOM 43.88
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 38.292 r_dihedral_angle_3_deg 17.611 r_dihedral_angle_4_deg 16.996 r_scangle_it 7.926 r_dihedral_angle_1_deg 6.257 r_scbond_it 5.543 r_mcangle_it 4.716 r_mcbond_it 2.948 r_angle_refined_deg 1.5 r_nbtor_refined 0.318
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.292 r_dihedral_angle_3_deg 17.611 r_dihedral_angle_4_deg 16.996 r_scangle_it 7.926 r_dihedral_angle_1_deg 6.257 r_scbond_it 5.543 r_mcangle_it 4.716 r_mcbond_it 2.948 r_angle_refined_deg 1.5 r_nbtor_refined 0.318 r_nbd_refined 0.194 r_symmetry_vdw_refined 0.181 r_xyhbond_nbd_refined 0.146 r_symmetry_hbond_refined 0.097 r_chiral_restr 0.094 r_bond_refined_d 0.011 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_refined 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 3559 Nucleic Acid Atoms Solvent Atoms 77 Heterogen Atoms 58
Software Software Software Name Purpose CBASS data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling