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CD59 in complex with CP-06 peptide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2UWR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 0.01 M ZnCl2, 0.1 M HEPES pH 7.0, 20% w/v PEG 6000
Crystal Properties Matthews coefficient Solvent content 2.13 42.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 30.94 α = 90 b = 85.88 β = 90.03 c = 96.57 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 PIXEL DECTRIS EIGER2 XE 16M 2019-07-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.97950 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 2.43 48.332 99.1 0.102 0.122 0.066 0.99 7 3.4 18920 78.67
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 2.43 2.47 99.5 0.23 0.272 0.143 0.29 0.7
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.43 48.332 18901 969 98.948 0.239 0.2353 0.2344 0.2983 0.2985 78.563
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] -1.882 0.344 1.587 0.294
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 20.707 r_dihedral_angle_3_deg 17.896 r_lrange_it 14.724 r_lrange_other 14.724 r_dihedral_angle_6_deg 13.729 r_scangle_it 12.077 r_scangle_other 12.075 r_mcangle_it 10.109 r_mcangle_other 10.108 r_dihedral_angle_other_2_deg 9.328
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 20.707 r_dihedral_angle_3_deg 17.896 r_lrange_it 14.724 r_lrange_other 14.724 r_dihedral_angle_6_deg 13.729 r_scangle_it 12.077 r_scangle_other 12.075 r_mcangle_it 10.109 r_mcangle_other 10.108 r_dihedral_angle_other_2_deg 9.328 r_scbond_it 8.661 r_scbond_other 8.661 r_dihedral_angle_1_deg 8.647 r_mcbond_it 7.441 r_mcbond_other 7.44 r_angle_refined_deg 2.777 r_angle_other_deg 1.061 r_symmetry_xyhbond_nbd_refined 0.296 r_metal_ion_refined 0.279 r_nbd_refined 0.254 r_nbd_other 0.241 r_xyhbond_nbd_refined 0.236 r_symmetry_nbd_other 0.224 r_symmetry_nbd_refined 0.223 r_nbtor_refined 0.206 r_ncsr_local_group_5 0.137 r_chiral_restr 0.136 r_ncsr_local_group_13 0.135 r_ncsr_local_group_2 0.131 r_ncsr_local_group_14 0.128 r_ncsr_local_group_4 0.124 r_ncsr_local_group_9 0.124 r_ncsr_local_group_11 0.123 r_ncsr_local_group_10 0.118 r_ncsr_local_group_6 0.115 r_ncsr_local_group_3 0.111 r_ncsr_local_group_8 0.11 r_ncsr_local_group_15 0.11 r_ncsr_local_group_1 0.107 r_ncsr_local_group_7 0.104 r_ncsr_local_group_12 0.1 r_symmetry_nbtor_other 0.095 r_symmetry_xyhbond_nbd_other 0.049 r_bond_refined_d 0.014 r_gen_planes_refined 0.01 r_gen_planes_other 0.003 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3691 Nucleic Acid Atoms Solvent Atoms 10 Heterogen Atoms 362
Software Software Software Name Purpose REFMAC refinement xia2 data reduction Aimless data scaling PHASER phasing