☰ Navigation Tabs
Human spermidine synthase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 300 20% PEG 3350, 0.2M MG(OAC)2, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 300K
Crystal Properties Matthews coefficient Solvent content 2.12 41.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.931 α = 90 b = 60.529 β = 108.42 c = 86.641 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 IMAGE PLATE RIGAKU RAXIS 2005-04-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.54178
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 40.19 98.7 0.138 5.9 3 38557 38557
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 40.19 36619 1938 99.57 0.19408 0.19111 0.191 0.24948 0.2446 RANDOM 25.59
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] 1.53 -0.63 -1.01 -0.92
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.743 r_dihedral_angle_4_deg 20.519 r_dihedral_angle_3_deg 15.956 r_dihedral_angle_1_deg 7.061 r_scangle_it 4.349 r_scbond_it 2.974 r_angle_refined_deg 1.816 r_mcangle_it 1.721 r_mcbond_it 1.148 r_nbtor_refined 0.301
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.743 r_dihedral_angle_4_deg 20.519 r_dihedral_angle_3_deg 15.956 r_dihedral_angle_1_deg 7.061 r_scangle_it 4.349 r_scbond_it 2.974 r_angle_refined_deg 1.816 r_mcangle_it 1.721 r_mcbond_it 1.148 r_nbtor_refined 0.301 r_symmetry_hbond_refined 0.27 r_symmetry_vdw_refined 0.261 r_nbd_refined 0.21 r_xyhbond_nbd_refined 0.177 r_chiral_restr 0.133 r_bond_refined_d 0.021 r_gen_planes_refined 0.007 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 4559 Nucleic Acid Atoms Solvent Atoms 289 Heterogen Atoms 40
Software Software Software Name Purpose REFMAC refinement CrystalClear data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing