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Crystal Structure of N-terminal Domain of Ribosomal Protein L9 (NTL9) K12M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 291 10 mM Imidazole (pH 8.0), 200 mM Zn Acetate, 2.5 M NaCl, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.18 43.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.614 α = 90 b = 74.416 β = 90 c = 50.755 γ = 90
Symmetry Space Group C 2 2 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 CCD ADSC QUANTUM 4 2006-02-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X26C 1.1 NSLS X26C
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 1.25 50 94.6 0.056 23.6 8.1 26328 26328
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 1.25 1.29 69.9 0.3 3.1 1904
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 (All) 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 SIRAS THROUGHOUT 1.25 10 26264 1306 94.7 0.145 0.145 0.144 0.1457 0.164 0.1664 RANDOM 15.758
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] 0.2 -0.95 0.75
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.384 r_dihedral_angle_3_deg 12.589 r_sphericity_free 11.31 r_scangle_it 5.596 r_dihedral_angle_1_deg 4.842 r_scbond_it 4.566 r_sphericity_bonded 4.283 r_mcangle_it 3.337 r_mcbond_it 3.226 r_rigid_bond_restr 3.182
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.384 r_dihedral_angle_3_deg 12.589 r_sphericity_free 11.31 r_scangle_it 5.596 r_dihedral_angle_1_deg 4.842 r_scbond_it 4.566 r_sphericity_bonded 4.283 r_mcangle_it 3.337 r_mcbond_it 3.226 r_rigid_bond_restr 3.182 r_angle_other_deg 1.755 r_mcbond_other 1.714 r_angle_refined_deg 1.673 r_symmetry_hbond_refined 0.701 r_xyhbond_nbd_refined 0.384 r_nbd_refined 0.28 r_metal_ion_refined 0.28 r_nbtor_refined 0.179 r_nbd_other 0.177 r_symmetry_vdw_other 0.175 r_chiral_restr 0.141 r_symmetry_vdw_refined 0.113 r_nbtor_other 0.096 r_bond_refined_d 0.017 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 796 Nucleic Acid Atoms Solvent Atoms 95 Heterogen Atoms 23
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SOLVE phasing RESOLVE phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection