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Crystal structure of a RNA binding motif protein 39 (RBM39) from Mus musculuS at 0.95 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 277 20.00% polyethylene glycol 6000, 0.1M sodium citrate pH 5.0, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.05 40
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.701 α = 90 b = 55.139 β = 90 c = 84.601 γ = 90
Symmetry Space Group P 21 21 21
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 MARMOSAIC 325 mm CCD Vertical focusing mirror; double crystal Si(111) monochromator 2011-03-05 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL14-1 0.95369,0.97915 SSRL BL14-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 0.95 28.2 99.4 0.063 14 5.2 131023 131023 6.707
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 0.95 0.97 96.7 0.67 0.67 1.9 4.1 9292
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 0.95 28.2 130918 6590 99.2 0.1197 0.1191 0.1285 0.1315 0.1401 RANDOM 11.9317
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] -0.17 0.56 -0.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.779 r_dihedral_angle_3_deg 11.882 r_sphericity_free 9.303 r_dihedral_angle_4_deg 8.95 r_dihedral_angle_1_deg 5.777 r_sphericity_bonded 4.418 r_scangle_it 4.07 r_mcangle_it 2.904 r_scbond_it 2.883 r_mcbond_it 1.997
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.779 r_dihedral_angle_3_deg 11.882 r_sphericity_free 9.303 r_dihedral_angle_4_deg 8.95 r_dihedral_angle_1_deg 5.777 r_sphericity_bonded 4.418 r_scangle_it 4.07 r_mcangle_it 2.904 r_scbond_it 2.883 r_mcbond_it 1.997 r_angle_refined_deg 1.832 r_rigid_bond_restr 1.423 r_angle_other_deg 1.222 r_mcbond_other 1.107 r_chiral_restr 0.113 r_bond_refined_d 0.018 r_gen_planes_refined 0.011 r_gen_planes_other 0.005 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1718 Nucleic Acid Atoms Solvent Atoms 386 Heterogen Atoms 25
Software Software Software Name Purpose MolProbity model building PDB_EXTRACT data extraction SHELX phasing SHARP phasing SCALA data scaling REFMAC refinement MOSFLM data reduction SHELXD phasing