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COMPLEX OF HUMAN NUCLEAR CAP-BINDING COMPLEX WITH M7GTP AND NELF-E C-TERMINAL PEPTIDE
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1H2T
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.8 293 6 mg/ml of CBC were mixed with 500 microM m7GTP and 500 microM NELF-E peptide in 120 mM NaCl, 1 mM tris(2-carboxyethyl)phosphine, 20 mM HEPES pH 7.8. Crystals grew at 20 C in mother liquor containing 0.2 M lithium citrate and 20% (w/v) PEG 3350.
Crystal Properties Matthews coefficient Solvent content 2.93 58.07
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 113.8 α = 90 b = 147.23 β = 91.48 c = 153.88 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 6M-F 2016-06-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE MASSIF-1 0.966 ESRF MASSIF-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.79 159 98.4 0.108 0.995 9.2 2.71 123434
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.79 2.87 91.6 1.29 0.363 0.91 2.7
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 1H2T 2.79 153.83 117089 6345 98.35 0.20331 0.20189 0.2059 0.2291 0.2288 RANDOM 72.444
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] -4.25 -0.06 4.79 -0.54
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.335 r_dihedral_angle_4_deg 17.36 r_dihedral_angle_3_deg 16.018 r_long_range_B_refined 9.192 r_long_range_B_other 9.191 r_scangle_other 6.644 r_mcangle_it 6.466 r_mcangle_other 6.466 r_dihedral_angle_1_deg 5.418 r_scbond_it 4.057
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.335 r_dihedral_angle_4_deg 17.36 r_dihedral_angle_3_deg 16.018 r_long_range_B_refined 9.192 r_long_range_B_other 9.191 r_scangle_other 6.644 r_mcangle_it 6.466 r_mcangle_other 6.466 r_dihedral_angle_1_deg 5.418 r_scbond_it 4.057 r_scbond_other 4.056 r_mcbond_it 4.052 r_mcbond_other 4.052 r_angle_refined_deg 1.312 r_angle_other_deg 0.922 r_chiral_restr 0.07 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 29164 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 132
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing