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X-ray structure of Roquin ROQ domain in complex with a UCP3 CDE2 SL RNA motif
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4QI0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 292 250 mM ammonium sulphate and 30% (v/w) PEG 4000
Crystal Properties Matthews coefficient Solvent content 2.12 42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.53 α = 90 b = 160.66 β = 107.96 c = 68.01 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 PILATUS 2M-F 2018-09-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 1.0 SLS X06DA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 2.4 50 99.6 0.01 1 14.05 5.2 35375 55.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.4 2.46 99.8 0.837 0.63 2.15 5.1
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 4QI0 2.4 42.4 33655 1720 99.76 0.2001 0.1968 0.2009 0.259 0.2619 RANDOM 55.195
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] 1.78 -1.1 -2.2 0.94
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.667 r_dihedral_angle_3_deg 18.253 r_dihedral_angle_4_deg 18 r_dihedral_angle_1_deg 7.341 r_angle_refined_deg 1.796 r_angle_other_deg 1.415 r_chiral_restr 0.093 r_bond_refined_d 0.01 r_gen_planes_refined 0.009 r_bond_other_d 0.007
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.667 r_dihedral_angle_3_deg 18.253 r_dihedral_angle_4_deg 18 r_dihedral_angle_1_deg 7.341 r_angle_refined_deg 1.796 r_angle_other_deg 1.415 r_chiral_restr 0.093 r_bond_refined_d 0.01 r_gen_planes_refined 0.009 r_bond_other_d 0.007 r_gen_planes_other 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4803 Nucleic Acid Atoms 1796 Solvent Atoms 295 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction XSCALE data scaling PHASER phasing