☰ Navigation Tabs
Crystal Structure of a Glycine Riboswitch from Fusobacterium nucleatum
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 298 25% PEGmme550, 0.05M HEPES PH 7.0, 0.01M MgCL2, 0.025M NaOAC pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.39 63.67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.58 α = 90 b = 104.617 β = 90 c = 156.509 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 315 2007-11-01 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD MAR 300 CCD 2010-01-01 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 1.0809 NSLS X25 2 SYNCHROTRON APS BEAMLINE 24-ID-C 1.1056, 1.1061, 1.0762 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 3.55 99 99.6 0.111 13.55 9.1 11496 11450 1.645
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1,2 3.55 3.68 100 1.645 9.4
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 (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 3.55 25 10803 10796 543 99.94 0.28362 0.28237 0.2928 0.30958 0.3524 RANDOM 222.648
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] 2.07 1.31 -3.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.729 r_dihedral_angle_4_deg 17.524 r_dihedral_angle_3_deg 16.848 r_dihedral_angle_1_deg 5.413 r_scangle_it 3.513 r_angle_other_deg 2.359 r_mcangle_it 2.293 r_scbond_it 2.004 r_angle_refined_deg 1.314 r_mcbond_it 1.314
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.729 r_dihedral_angle_4_deg 17.524 r_dihedral_angle_3_deg 16.848 r_dihedral_angle_1_deg 5.413 r_scangle_it 3.513 r_angle_other_deg 2.359 r_mcangle_it 2.293 r_scbond_it 2.004 r_angle_refined_deg 1.314 r_mcbond_it 1.314 r_chiral_restr 0.056 r_bond_refined_d 0.006 r_gen_planes_refined 0.004 r_gen_planes_other 0.004 r_mcbond_other 0.003 r_bond_other_d 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 749 Nucleic Acid Atoms 3624 Solvent Atoms 20 Heterogen Atoms 23
Software Software Software Name Purpose HKL-2000 data collection SHELXS phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling