☰ Navigation Tabs
Plasmodium falciparum Nucleoside diphosphate kinase B
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 298 calcium acetate, PEG3350, sodium cacodylate, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.3 45.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.593 α = 90 b = 112.424 β = 119.05 c = 68.59 γ = 90
Symmetry Space Group P 1 21 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 CCD ADSC QUANTUM 4 2004-06-10 M SINGLE WAVELENGTH 2 1 100 CCD ADSC QUANTUM 210 2004-06-20
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.974609 SSRL BL11-1 2 SYNCHROTRON ALS BEAMLINE 8.2.1 0.9793 ALS 8.2.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 3.05 52.705 99.44 0.111 0.111 7.1 3.5 17424 17326 -3 80.965
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.05 3.21 99 0.574 0.574 1.9 3.4 2519
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 3.05 52.7 17424 16447 876 99.47 0.23238 0.23238 0.22948 0.2386 0.28608 0.2985 RANDOM 50.431
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 -0.17 0.22 -0.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 4.823 r_scangle_it 4.515 r_mcangle_it 3.002 r_scbond_it 2.836 r_mcbond_it 1.618 r_angle_refined_deg 1.156 r_nbd_refined 0.211 r_symmetry_vdw_refined 0.205 r_xyhbond_nbd_refined 0.16 r_symmetry_hbond_refined 0.102
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 4.823 r_scangle_it 4.515 r_mcangle_it 3.002 r_scbond_it 2.836 r_mcbond_it 1.618 r_angle_refined_deg 1.156 r_nbd_refined 0.211 r_symmetry_vdw_refined 0.205 r_xyhbond_nbd_refined 0.16 r_symmetry_hbond_refined 0.102 r_chiral_restr 0.086 r_bond_refined_d 0.011 r_gen_planes_refined 0.003 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_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 7164 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction CCP4 data scaling SHARP phasing