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tRNA-Guanine transglycosylase (TGT) in complex with 2-Amino-lin-Benzoguanine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1P0D PDB ENTRY 1P0D
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 288 100mM TRIS HCl, 1mM DTT, 10% DMSO, 5% PEG 8000, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 288K
Crystal Properties Matthews coefficient Solvent content 2.4 50
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.5 α = 90 b = 65.1 β = 96.2 c = 70.6 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 Mirror and Double Crystal Monochromator 2007-03-18 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 1.28 30 97.4 0.038 21.4 2.7 102059 102059
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.28 1.3 99.6 0.249 3.8 2.5 5228
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 FOURIER SYNTHESIS FREE R PDB ENTRY 1P0D 1.28 10 101970 96866 5104 97.5 0.1622 0.1618 0.1649 0.1858 0.1676 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 20 2750 3201
RMS Deviations Key Refinement Restraint Deviation s_non_zero_chiral_vol 0.082 s_zero_chiral_vol 0.076 s_anti_bump_dis_restr 0.058 s_similar_adp_cmpnt 0.044 s_angle_d 0.03 s_from_restr_planes 0.0284 s_bond_d 0.014 s_similar_dist s_rigid_bond_adp_cmpnt s_approx_iso_adps
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2803 Nucleic Acid Atoms Solvent Atoms 375 Heterogen Atoms 23
Software Software Software Name Purpose SHELX model building SHELXL-97 refinement MAR345 data collection HKL-2000 data reduction HKL-2000 data scaling