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Tacaribe nucleoprotein structure
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4GV3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 293 32% PEG3350, 0.1 M MOPS (pH7.0), and 0.11 M ammonium citrate, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.94 68.77
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 115.17 α = 90 b = 115.17 β = 90 c = 56.92 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray CCD ADSC QUANTUM 4 2011-06-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.9798 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.73 57.58 99 0.084 0.083 1.9 5.8 39591 39191 3 1.9
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 1.73 1.82 100 0.78 0.76 1.9 5.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 4GV3 1.73 57.59 39391 37294 1896 99.76 0.15389 0.15324 0.1715 0.16686 0.1827 RANDOM 34.03
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] -10.16 -10.16 20.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.189 r_dihedral_angle_3_deg 14.344 r_dihedral_angle_4_deg 12.803 r_dihedral_angle_1_deg 5.553 r_angle_refined_deg 1.252 r_chiral_restr 0.09 r_bond_refined_d 0.008 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.189 r_dihedral_angle_3_deg 14.344 r_dihedral_angle_4_deg 12.803 r_dihedral_angle_1_deg 5.553 r_angle_refined_deg 1.252 r_chiral_restr 0.09 r_bond_refined_d 0.008 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_it r_mcbond_other r_mcangle_it r_scbond_it 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 1565 Nucleic Acid Atoms Solvent Atoms 131 Heterogen Atoms 2
Software Software Software Name Purpose EDNA data collection PHASES phasing REFMAC refinement MOSFLM data reduction SCALA data scaling