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Thermus thermophilus family GH57 branching enzyme: crystal structure, mechanism of action and products formed
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1UFA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 20% (w/v) PEG 3350, 8% (v/v) Tacsimate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.15 42.91
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 119.532 α = 90 b = 119.532 β = 90 c = 74.097 γ = 90
Symmetry Space Group P 42 21 2
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 2008-02-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.933 ESRF ID14-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.3 40 99.6 7.7 117389 116916 2 2
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) 1.3 1.35 99.1 0.462 2.5 7.7 16811
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-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1UFA 1.35 33 116835 110973 5862 99.51 0.17 0.17043 0.16945 0.1695 0.18905 0.1893 RANDOM 22.214
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] -0.42 -0.42 0.84
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.404 r_dihedral_angle_4_deg 16.867 r_dihedral_angle_3_deg 12.26 r_dihedral_angle_1_deg 5.307 r_scangle_it 2.779 r_scbond_it 1.821 r_angle_refined_deg 1.31 r_mcangle_it 1.063 r_mcbond_it 0.637 r_chiral_restr 0.089
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.404 r_dihedral_angle_4_deg 16.867 r_dihedral_angle_3_deg 12.26 r_dihedral_angle_1_deg 5.307 r_scangle_it 2.779 r_scbond_it 1.821 r_angle_refined_deg 1.31 r_mcangle_it 1.063 r_mcbond_it 0.637 r_chiral_restr 0.089 r_bond_refined_d 0.011 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4124 Nucleic Acid Atoms Solvent Atoms 684 Heterogen Atoms 6
Software Software Software Name Purpose DNA data collection PHASER phasing REFMAC refinement MOSFLM data reduction SCALA data scaling