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Crystal structure of the FMN riboswitch bound to FMN, iridium hexamine soak.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 0.1 M MES-Na pH 6.5
10% PEG4000
0.1 M MgCl2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.81 56.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.493 α = 90 b = 71.493 β = 90 c = 138.718 γ = 120
Symmetry Space Group P 31 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 315 2007-12-02 M MAD 2 1 x-ray 100 CCD ADSC QUANTUM 315 2007-12-02 M MAD 3 1 x-ray 100 CCD ADSC QUANTUM 315 2007-12-02 M MAD 1,2,3 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-C 1.105275 APS 24-ID-C 2 SYNCHROTRON APS BEAMLINE 24-ID-C 1.085914 APS 24-ID-C 3 SYNCHROTRON APS BEAMLINE 24-ID-C 1.105462 APS 24-ID-C
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 1,2,3 3 20 99 0.099 35.5 5.5 8615 8529
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) 1,2,3 3 3.11 93.2 0.459 3.1 5 848
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 3 20 8189 8073 400 98.58 0.21054 0.21054 0.2084 0.2058 0.25212 0.2392 RANDOM 111.245
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] -3.05 -1.53 -3.05 4.58
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 1.389 r_angle_refined_deg 0.989 r_scbond_it 0.872 r_nbtor_refined 0.281 r_nbd_refined 0.183 r_xyhbond_nbd_refined 0.162 r_symmetry_vdw_refined 0.117 r_chiral_restr 0.048 r_bond_refined_d 0.006 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms Nucleic Acid Atoms 2343 Solvent Atoms 1 Heterogen Atoms 116
Software Software Software Name Purpose CBASS data collection SHARP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling