☰ Navigation Tabs
Crystal structure of the branched-chain polyamine synthase (BpsA) in complex with spermidine
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 293 0.1M Sodium chloride, 0.1M Tris pH 8.5, 12 % w/v PEG 4000
Crystal Properties Matthews coefficient Solvent content 1.95 36.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.869 α = 90 b = 78.783 β = 90.16 c = 79.407 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 RAYONIX MX300HE 2014-12-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.90 SPring-8 BL44XU
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 1.95 50.01 99.9 12.4 5.6 47518
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 1.95 50.01 38437 1964 84.8 0.17391 0.17122 0.1811 0.22493 0.2295 RANDOM 25.426
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] 1.41 0.24 -0.53 -0.87
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.012 r_dihedral_angle_4_deg 18.583 r_dihedral_angle_3_deg 16.467 r_long_range_B_refined 7.203 r_long_range_B_other 7.198 r_dihedral_angle_1_deg 6.675 r_scangle_other 4.776 r_mcangle_it 2.998 r_mcangle_other 2.998 r_scbond_it 2.962
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.012 r_dihedral_angle_4_deg 18.583 r_dihedral_angle_3_deg 16.467 r_long_range_B_refined 7.203 r_long_range_B_other 7.198 r_dihedral_angle_1_deg 6.675 r_scangle_other 4.776 r_mcangle_it 2.998 r_mcangle_other 2.998 r_scbond_it 2.962 r_scbond_other 2.961 r_mcbond_it 2.031 r_mcbond_other 2.029 r_angle_refined_deg 1.804 r_angle_other_deg 1.094 r_chiral_restr 0.111 r_bond_refined_d 0.017 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.002 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5478 Nucleic Acid Atoms Solvent Atoms 164 Heterogen Atoms 21
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing