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tRNA guanine transglycosylase V233G mutant preQ1 complex structure
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3BL3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 291 100mM Tris/HCl, 1mM DTT, 5% PEG 8000, 10% DMSO, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.27 48.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.655 α = 90 b = 64.878 β = 95.55 c = 70.328 γ = 90
Symmetry Space Group C 1 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 MAR CCD 165 mm 2007-03-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.2 0.97803 BESSY 14.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.19 8 91 0.041 21 3.7 224997 116963
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R 3bl3 1.19 8 116963 116963 91 0.1512 0.1508 0.1585 0.1854 0.1709 RANDOM
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]
Coordinate Error Structure Solution Method Refinement High Resolution Refinement Low Resolution 10 2579 2925
RMS Deviations Key Refinement Restraint Deviation s_approx_iso_adps 0.074 s_zero_chiral_vol 0.069 s_non_zero_chiral_vol 0.068 s_anti_bump_dis_restr 0.053 s_similar_adp_cmpnt 0.039 s_angle_d 0.028 s_from_restr_planes 0.0252 s_bond_d 0.012 s_rigid_bond_adp_cmpnt 0.005 s_similar_dist
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2654 Nucleic Acid Atoms Solvent Atoms 250 Heterogen Atoms 26
Software Software Software Name Purpose SHELX model building SHELXL-97 refinement MAR345dtb data collection HKL-2000 data reduction HKL-2000 data scaling CNS phasing