☰ Navigation Tabs
Crystal structure of Ribosomal oxygenase NO66 in complex with substrate Rpl8 peptide and Ni(II) and cofactor N-oxalyglycine
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 290 0.1 M Imidazole pH 6.5, 0.5 M Sodium acetate trihydrate
Crystal Properties Matthews coefficient Solvent content 3.12 60.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.5 α = 90 b = 202.93 β = 118.94 c = 85.68 γ = 90
Symmetry Space Group C 1 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 100 CCD ADSC QUANTUM 315r 2013-09-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U 0.9791 SSRF BL17U
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.2 50 98 0.123 7.6 3.4 62029
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.32 97.8 0.502 2.4 3.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT 2.2 40.57 62029 3314 97.86 0.20578 0.20279 0.26154 0.2605 RANDOM 24.325
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] -0.09 -0.25 -0.05 0.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.184 r_dihedral_angle_4_deg 20.02 r_dihedral_angle_3_deg 17.194 r_dihedral_angle_1_deg 7.045 r_long_range_B_refined 6.197 r_long_range_B_other 6.196 r_scangle_other 3.637 r_mcangle_it 3.058 r_mcangle_other 3.057 r_scbond_it 2.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.184 r_dihedral_angle_4_deg 20.02 r_dihedral_angle_3_deg 17.194 r_dihedral_angle_1_deg 7.045 r_long_range_B_refined 6.197 r_long_range_B_other 6.196 r_scangle_other 3.637 r_mcangle_it 3.058 r_mcangle_other 3.057 r_scbond_it 2.41 r_scbond_other 2.41 r_mcbond_it 2.03 r_mcbond_other 2.03 r_angle_refined_deg 1.922 r_angle_other_deg 0.96 r_chiral_restr 0.113 r_bond_refined_d 0.017 r_gen_planes_refined 0.009 r_bond_other_d 0.002 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 7480 Nucleic Acid Atoms Solvent Atoms 563 Heterogen Atoms 44
Software Software Software Name Purpose REFMAC refinement MOSFLM data processing SCALA data scaling PHASER phasing Coot model building