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DARPin_D5/Her3 domain 4 complex, monoclinic crystals
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2Y0B
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 4.83 293 0.1 M Na citrate, 12% PEG4000, 0.2 M Li sulfate
Crystal Properties Matthews coefficient Solvent content 2.66 53.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.872 α = 90 b = 62.254 β = 102.41 c = 74.545 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 EIGER X 16M 2017-05-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1.000 SLS X06SA
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 2.296 44.405 93.2 0.131 0.147 0.063 0.993 5.4 4.52 24338 37.85
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 2.296 2.336 97.4 0.515 0.576 0.249 0.84 2.1 4.44
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 2y0b 2.297 44.4 24338 1185 93.2 0.1873 0.184 0.1778 0.2536 0.2397 RANDOM 34.4
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] 2.5187 2.3119 8.4759 -10.9946
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 16.74 t_omega_torsion 2.98 t_angle_deg 0.99 t_bond_d 0.008 t_dihedral_angle_d t_trig_c_planes t_gen_planes t_it t_nbd t_improper_torsion
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 16.74 t_omega_torsion 2.98 t_angle_deg 0.99 t_bond_d 0.008 t_dihedral_angle_d t_trig_c_planes t_gen_planes t_it t_nbd t_improper_torsion t_pseud_angle t_chiral_improper_torsion t_sum_occupancies t_utility_distance t_utility_angle t_utility_torsion t_ideal_dist_contact
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3818 Nucleic Acid Atoms Solvent Atoms 463 Heterogen Atoms 30
Software Software Software Name Purpose BUSTER refinement XDS data reduction Aimless data scaling MOLREP phasing PDB_EXTRACT data extraction