☰ Navigation Tabs
Crystal Structure Analysis of neutral ceramidase from Pseudomonas aeruginosa
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP VAPOR DIFFUSION, HANGING DROP
Crystal Properties Matthews coefficient Solvent content 2.64 53.48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 182.175 α = 90 b = 59.292 β = 102.16 c = 70.976 γ = 90
Symmetry Space Group C 1 2 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 315 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-5A 1.000 Photon Factory BL-5A
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 1.4 50 90.8 0.102 0.102 17 3.4 131655 131655 -3 -3
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 1.4 1.45 51.4 0.621 0.621 1.2 1.9
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 MOLECULAR REPLACEMENT THROUGHOUT 1.4 22.6 125017 125017 6630 90.67 0.17565 0.17565 0.17404 0.1732 0.20641 0.2053 RANDOM 20.951
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] -0.03 -0.03 0.06 -0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.976 r_dihedral_angle_4_deg 16.067 r_dihedral_angle_3_deg 14.405 r_dihedral_angle_1_deg 10.331 r_sphericity_free 5.079 r_rigid_bond_restr 4.274 r_sphericity_bonded 4.259 r_scangle_it 4.119 r_scbond_it 4.055 r_mcangle_it 1.784
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.976 r_dihedral_angle_4_deg 16.067 r_dihedral_angle_3_deg 14.405 r_dihedral_angle_1_deg 10.331 r_sphericity_free 5.079 r_rigid_bond_restr 4.274 r_sphericity_bonded 4.259 r_scangle_it 4.119 r_scbond_it 4.055 r_mcangle_it 1.784 r_angle_refined_deg 1.652 r_mcbond_it 1.207 r_nbtor_refined 0.318 r_symmetry_vdw_refined 0.24 r_nbd_refined 0.229 r_chiral_restr 0.153 r_symmetry_hbond_refined 0.151 r_xyhbond_nbd_refined 0.146 r_bond_refined_d 0.012 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4897 Nucleic Acid Atoms Solvent Atoms 653 Heterogen Atoms 131
Software Software Software Name Purpose REFMAC refinement ADSC data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing