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Crystal structure of the complex of archaeal ribosomal stalk protein aP1 and archaeal ribosome recycling factor aABCE1.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1YQT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 15% (w/v) PEG 4000,
10% (v/v) 2-propanol,
0.1 M HEPES pH 7.0
Crystal Properties Matthews coefficient Solvent content 2.29 46.29
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.011 α = 90 b = 64.731 β = 90 c = 147.073 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 IMAGE PLATE RIGAKU RAXIS IV++ 2015-08-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.1 19.98 97.2 21.03 3.18 31682 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.1 2.22
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 1YQT 2.1 19.98 31682 1714 97.22 0.19695 0.19439 0.2027 0.24376 0.2498 RANDOM 29.331
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] -0.02 0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.005 r_dihedral_angle_4_deg 16.372 r_dihedral_angle_3_deg 13.5 r_dihedral_angle_1_deg 5.508 r_long_range_B_refined 4.13 r_long_range_B_other 4.023 r_scangle_other 2.212 r_mcangle_it 2.016 r_mcangle_other 2.015 r_scbond_it 1.276
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.005 r_dihedral_angle_4_deg 16.372 r_dihedral_angle_3_deg 13.5 r_dihedral_angle_1_deg 5.508 r_long_range_B_refined 4.13 r_long_range_B_other 4.023 r_scangle_other 2.212 r_mcangle_it 2.016 r_mcangle_other 2.015 r_scbond_it 1.276 r_scbond_other 1.276 r_mcbond_it 1.157 r_mcbond_other 1.157 r_angle_refined_deg 1.104 r_angle_other_deg 0.713 r_chiral_restr 0.061 r_bond_refined_d 0.006 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 4199 Nucleic Acid Atoms Solvent Atoms 292 Heterogen Atoms 56
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling BALBES phasing