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Crystal structure of Rev7-R124A/Rev3-RBM2 (residues 1988-2014) complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3ABD 3ABD (Rev7 molecule only)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 292.15 well solution containing 100 mM sodium acetate, 200 mM NaCl, 1.4 M ammonium sulfate was mixed at 1:1 ratio with protein at 45 mg/mL in 5 mM HEPES, 100 mM NaCl, 10 mM DTT, pH=7.4
Crystal Properties Matthews coefficient Solvent content 2.32 46.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.691 α = 90 b = 63.691 β = 90 c = 116.274 γ = 120
Symmetry Space Group P 31 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 77.15 PIXEL DECTRIS PILATUS3 S 6M 2016-03-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE F1 0.976 CHESS F1
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 1.68 116.27 99.6 0.063 0.067 0.022 40.4 9.3 31583
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 3ABD (Rev7 molecule only) 1.68 116.27 31583 1486 99.6 0.183 0.181 0.1915 0.223 0.2316 RANDOM 47.572
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] 1.8 0.9 1.8 -5.85
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.115 r_dihedral_angle_3_deg 15.615 r_dihedral_angle_4_deg 15.456 r_dihedral_angle_1_deg 6.022 r_mcangle_it 5.423 r_mcbond_it 4.081 r_mcbond_other 4.061 r_angle_other_deg 3.515 r_angle_refined_deg 1.84 r_chiral_restr 0.115
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.115 r_dihedral_angle_3_deg 15.615 r_dihedral_angle_4_deg 15.456 r_dihedral_angle_1_deg 6.022 r_mcangle_it 5.423 r_mcbond_it 4.081 r_mcbond_other 4.061 r_angle_other_deg 3.515 r_angle_refined_deg 1.84 r_chiral_restr 0.115 r_bond_refined_d 0.019 r_gen_planes_other 0.016 r_gen_planes_refined 0.009 r_bond_other_d
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1857 Nucleic Acid Atoms Solvent Atoms 140 Heterogen Atoms 18
Software Software Software Name Purpose REFMAC refinement PHASER phasing Coot model building SCALEPACK data scaling DENZO data reduction