☰ Navigation Tabs
Crystal Structure of S. pombe Pdc1 Ge1 Domain
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 298 0.2 M Ammonium Acetate, 0.1 M HEPES, 25% (w/v) PEG 3350, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.07 40.59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.33 α = 90 b = 77.84 β = 90 c = 36.51 γ = 90
Symmetry Space Group P 21 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL PSI PILATUS 6M 2013-08-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 1 SLS X10SA
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 1.35 40.4 99.7 30393 30287 -2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.35 1.39 100
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 after obtaining initial MR model by S-SAD THROUGHOUT 1.35 40.44 28166 2120 99.64 0.18675 0.18476 0.1841 0.21164 0.2123 RANDOM 19.888
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] -0.69 0.39 0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.569 r_sphericity_free 32.778 r_dihedral_angle_4_deg 19.152 r_sphericity_bonded 14.1 r_dihedral_angle_3_deg 12.827 r_dihedral_angle_1_deg 4.749 r_long_range_B_refined 3.862 r_long_range_B_other 3.762 r_scangle_other 3.643 r_scbond_it 2.958
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.569 r_sphericity_free 32.778 r_dihedral_angle_4_deg 19.152 r_sphericity_bonded 14.1 r_dihedral_angle_3_deg 12.827 r_dihedral_angle_1_deg 4.749 r_long_range_B_refined 3.862 r_long_range_B_other 3.762 r_scangle_other 3.643 r_scbond_it 2.958 r_scbond_other 2.95 r_mcangle_other 2.761 r_mcangle_it 2.76 r_rigid_bond_restr 2.587 r_mcbond_it 2.343 r_mcbond_other 2.335 r_angle_refined_deg 1.428 r_angle_other_deg 0.841 r_chiral_restr 0.087 r_bond_refined_d 0.01 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1067 Nucleic Acid Atoms Solvent Atoms 70 Heterogen Atoms
Software Software Software Name Purpose MxCuBE data collection PHASER phasing REFMAC refinement XDS data reduction XSCALE data scaling