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Crystal structure of the ROQ domain of human Roquin-2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4QIK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.6 298 mixing 2 uL protein with 1 uL well solution consisting of 3.2 M NaCl, 0.1 M NaOAc pH4.6
Crystal Properties Matthews coefficient Solvent content 4.01 69.33
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 144.764 α = 90 b = 144.764 β = 90 c = 56.141 γ = 90
Symmetry Space Group P 43 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 CCD RAYONIX MX-300 2015-02-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.97949 CLSI 08ID-1
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 2.71 50 100 0.083 0.088 0.028 9.8 9.6 16736 59.4
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 2.71 2.76 99.9 0.905 0.956 0.302 0.896 9.7 807
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 4QIK 2.71 50 15846 846 99.95 0.2218 0.2202 0.2255 0.2526 0.2508 RANDOM 79.795
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] 3.28 3.28 -6.56
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.73 r_dihedral_angle_4_deg 14.8 r_dihedral_angle_3_deg 14.5 r_dihedral_angle_1_deg 5.411 r_mcangle_it 3.195 r_mcbond_other 1.991 r_mcbond_it 1.99 r_angle_refined_deg 1.409 r_angle_other_deg 0.933 r_chiral_restr 0.074
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.73 r_dihedral_angle_4_deg 14.8 r_dihedral_angle_3_deg 14.5 r_dihedral_angle_1_deg 5.411 r_mcangle_it 3.195 r_mcbond_other 1.991 r_mcbond_it 1.99 r_angle_refined_deg 1.409 r_angle_other_deg 0.933 r_chiral_restr 0.074 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2226 Nucleic Acid Atoms Solvent Atoms 13 Heterogen Atoms 4
Software Software Software Name Purpose HKL-3000 data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-3000 data reduction PHASER phasing