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Se-Met L45M Programmed Cell Death 5 protein from Sulfolobus solfataricus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.9 293 0.2 M NaCl, 25 % PEG3350, 0.1 M Bis-Tris pH 5.5
Crystal Properties Matthews coefficient Solvent content 2.25 45.26
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 109.085 α = 90 b = 40.86 β = 129.73 c = 77.819 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 315r 2015-10-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSRRC BEAMLINE BL13B1 0.97999 NSRRC BL13B1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2.11 30 98.6 0.055 0.059 0.023 30.13 6.8 15111 41.07
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.11 2.21 92.3 0.377 0.414 0.168 0.928 4.09 5.6
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 SAD THROUGHOUT 2.11 19.95 14333 767 97.65 0.228 0.22475 0.2329 0.28385 0.2884 RANDOM 49.61
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] 0.01 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.619 r_dihedral_angle_3_deg 16.395 r_dihedral_angle_4_deg 15.701 r_long_range_B_refined 12.104 r_long_range_B_other 12.101 r_scangle_other 9.172 r_mcangle_it 5.916 r_mcangle_other 5.915 r_dihedral_angle_1_deg 5.897 r_scbond_it 5.834
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.619 r_dihedral_angle_3_deg 16.395 r_dihedral_angle_4_deg 15.701 r_long_range_B_refined 12.104 r_long_range_B_other 12.101 r_scangle_other 9.172 r_mcangle_it 5.916 r_mcangle_other 5.915 r_dihedral_angle_1_deg 5.897 r_scbond_it 5.834 r_scbond_other 5.831 r_mcbond_it 4.275 r_mcbond_other 4.271 r_angle_refined_deg 1.574 r_angle_other_deg 1.279 r_chiral_restr 0.075 r_bond_refined_d 0.008 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 1667 Nucleic Acid Atoms Solvent Atoms 75 Heterogen Atoms 28
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling SHELX phasing PHASER phasing ARP/wARP model building Coot model building