☰ Navigation Tabs
Apo-form of T. thermophilus 16S rRNA A1518 and A1519 methyltransferase (KsgA) in space group P21212
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 microbatch technique under oil 277 200 mM di-ammonium hydrogen phosphate and 20% w/v polyethylene glycole 3350, microbatch technique under oil, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.13 42.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 137.046 α = 90 b = 53.692 β = 90 c = 69.354 γ = 90
Symmetry Space Group P 21 21 2
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 MAR CCD 130 mm Bent single Si (111) crystal monochromator (horizontal focusing and deflection) with vertical focusing mirror SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X4C 0.9797 NSLS X4C
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 1.52 50 94.5 0.039 34.67 5 77536
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 1.52 1.56 71.8 0.25 4.27 3.5 11180
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT 1.52 25.04 77536 3868 97.46 0.206 0.204 0.1998 0.241 0.2376 RANDOM 17.129
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.764 r_dihedral_angle_4_deg 14.12 r_dihedral_angle_3_deg 13.961 r_dihedral_angle_1_deg 5.296 r_scangle_it 2.96 r_scbond_it 1.901 r_angle_refined_deg 1.334 r_mcangle_it 1.12 r_mcbond_it 0.774 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.764 r_dihedral_angle_4_deg 14.12 r_dihedral_angle_3_deg 13.961 r_dihedral_angle_1_deg 5.296 r_scangle_it 2.96 r_scbond_it 1.901 r_angle_refined_deg 1.334 r_mcangle_it 1.12 r_mcbond_it 0.774 r_nbtor_refined 0.308 r_nbd_refined 0.217 r_symmetry_hbond_refined 0.185 r_symmetry_vdw_refined 0.164 r_xyhbond_nbd_refined 0.141 r_chiral_restr 0.083 r_bond_refined_d 0.01 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4094 Nucleic Acid Atoms Solvent Atoms 768 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling SOLVE phasing