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Crystallization of the Thermotoga maritima lysine riboswitch bound to lysine, IRIDIUM HEXAMINE SOAK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.7 293 18% PEG4000, 0.1M sodium citrate, 20% isopropanol, pH 5.7, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.61 52.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.918 α = 90 b = 78.004 β = 90 c = 140.835 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 CCD ADSC QUANTUM 4 2008-02-06 M MAD 2 1 3 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A 1.105199 NSLS X29A 2 SYNCHROTRON NSLS BEAMLINE X29A 1.105516 NSLS X29A 3 SYNCHROTRON NSLS BEAMLINE X29A 1.085799 NSLS X29A
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 2.4 20 99 0.113 23.9 6.5 24039 23799
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) 2.4 2.49 97.6 0.539 3.4 6.1 2338
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 MAD THROUGHOUT 2.4 20 22705 22478 1206 99.02 0.20595 0.20595 0.20397 0.2035 0.24319 0.241 RANDOM 27.732
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] -0.24 -1.38 1.62
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 7.085 r_scangle_it 1.372 r_angle_refined_deg 1.193 r_scbond_it 0.877 r_mcangle_it 0.456 r_mcbond_it 0.287 r_nbtor_refined 0.264 r_nbd_refined 0.154 r_symmetry_vdw_refined 0.127 r_xyhbond_nbd_refined 0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 7.085 r_scangle_it 1.372 r_angle_refined_deg 1.193 r_scbond_it 0.877 r_mcangle_it 0.456 r_mcbond_it 0.287 r_nbtor_refined 0.264 r_nbd_refined 0.154 r_symmetry_vdw_refined 0.127 r_xyhbond_nbd_refined 0.12 r_symmetry_hbond_refined 0.12 r_metal_ion_refined 0.097 r_chiral_restr 0.066 r_bond_refined_d 0.006 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 3752 Solvent Atoms 259 Heterogen Atoms 156
Software Software Software Name Purpose REFMAC refinement CBASS data collection HKL-2000 data reduction HKL-2000 data scaling SHARP phasing