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Complex of human nuclear cap-binding complex with ARS2 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 5 293 CBC was mixed with an access of ARS2(827-871) in the presence of 1 mM m7GTP and subjected to gel filtration (120 mM NaCl, 5 mM beta-mercaptoethanol, 20 mM HEPES pH 7.8). The complex was concentrated to 8 mg/ml. Crystals were obtained in mother liquor containing 0.1 M sodium acetate pH 5, 8% (v/v) MPD and 0.1 M guanidine hydrochloride at 20 C.
Crystal Properties Matthews coefficient Solvent content 2.39 48.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.52 α = 90 b = 112.99 β = 90.3 c = 270.98 γ = 90.02
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 2014-07-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.979 ESRF ID23-1
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 2.8 280 97.5 0.097 0.995 6.63 2.08 200837
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 2.8 2.91 96.3 0.697 0.585 1.2 2
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 2.8 270.98 190778 10059 97.48 0.23236 0.23051 0.2315 0.26798 0.268 RANDOM 71.494
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] 5 -0.17 0.38 -4.78 0.05 -0.23
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.677 r_dihedral_angle_4_deg 15.14 r_dihedral_angle_3_deg 15.095 r_long_range_B_refined 7.587 r_long_range_B_other 7.587 r_dihedral_angle_1_deg 5.399 r_mcangle_it 5.25 r_mcangle_other 5.25 r_scangle_other 4.943 r_mcbond_it 3.167
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.677 r_dihedral_angle_4_deg 15.14 r_dihedral_angle_3_deg 15.095 r_long_range_B_refined 7.587 r_long_range_B_other 7.587 r_dihedral_angle_1_deg 5.399 r_mcangle_it 5.25 r_mcangle_other 5.25 r_scangle_other 4.943 r_mcbond_it 3.167 r_mcbond_other 3.167 r_scbond_it 2.891 r_scbond_other 2.891 r_angle_refined_deg 1.194 r_angle_other_deg 0.893 r_chiral_restr 0.064 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 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 58479 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 264
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing