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yCP beta5-A49T-mutant in complex with ONX 0914
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1RYP pdb entry 1RYP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.8 293 20 MM MGAC2, 13% MPD, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.67 66.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 135.56 α = 90 b = 299.58 β = 112.81 c = 144.91 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 PSI PILATUS 6M 2012-09-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1.0 SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.8 30 98.9 0.103 8.2 260912 258042 2 2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 pdb entry 1RYP 2.8 15 258042 245139 12903 98.99 0.196 0.19455 0.1992 0.22354 0.2275 RANDOM 64.5
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] 3.05 -1.38 -6.54 3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.73 r_sphericity_free 29.41 r_sphericity_bonded 16.197 r_dihedral_angle_3_deg 15.031 r_dihedral_angle_4_deg 14.804 r_dihedral_angle_1_deg 5.266 r_long_range_B_refined 4.367 r_long_range_B_other 4.359 r_mcangle_it 4.013 r_mcangle_other 4.013
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.73 r_sphericity_free 29.41 r_sphericity_bonded 16.197 r_dihedral_angle_3_deg 15.031 r_dihedral_angle_4_deg 14.804 r_dihedral_angle_1_deg 5.266 r_long_range_B_refined 4.367 r_long_range_B_other 4.359 r_mcangle_it 4.013 r_mcangle_other 4.013 r_scangle_other 3.476 r_mcbond_it 2.971 r_mcbond_other 2.971 r_scbond_it 2.734 r_scbond_other 2.734 r_rigid_bond_restr 1.175 r_angle_refined_deg 0.921 r_angle_other_deg 0.834 r_chiral_restr 0.052 r_bond_refined_d 0.004 r_gen_planes_refined 0.003 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 49174 Nucleic Acid Atoms Solvent Atoms 195 Heterogen Atoms 285
Software Software Software Name Purpose XDS data scaling REFMAC refinement XDS data reduction XSCALE data scaling REFMAC phasing