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A beta/alpha-barrel built by the combination of fragments from different folds
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1THF 1THF,1TMY experimental model PDB 1TMY 1THF,1TMY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 0.1 M 2-(N-morpholino)ethanesulfonic acid (MES) at pH 6.5 with 1.6 M ammonium sulphate and 10% dioxane (v/v), VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 4.57 73.09
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 108.84 α = 90 b = 108.84 β = 90 c = 80.41 γ = 90
Symmetry Space Group P 41 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 MARMOSAIC 225 mm CCD 2007-10-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 1.071 SLS X10SA
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 3.1 36 92.3 0.093 18.5 8681 7947 2.4 96
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) 3.1 3.27 94.8 0.549 2.4 13.6 1386
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 1THF,1TMY 3.1 30 2 8681 7947 598 100 0.222 0.22378 0.22124 0.2447 0.25599 0.2724 RANDOM 102.258
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] -1.77 -1.77 3.54
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.006 r_dihedral_angle_3_deg 20.842 r_dihedral_angle_4_deg 19.169 r_dihedral_angle_1_deg 8.189 r_scangle_it 1.653 r_angle_refined_deg 1.438 r_scbond_it 0.91 r_mcangle_it 0.774 r_mcbond_it 0.432 r_nbtor_refined 0.314
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.006 r_dihedral_angle_3_deg 20.842 r_dihedral_angle_4_deg 19.169 r_dihedral_angle_1_deg 8.189 r_scangle_it 1.653 r_angle_refined_deg 1.438 r_scbond_it 0.91 r_mcangle_it 0.774 r_mcbond_it 0.432 r_nbtor_refined 0.314 r_nbd_refined 0.243 r_symmetry_vdw_refined 0.183 r_xyhbond_nbd_refined 0.154 r_chiral_restr 0.105 r_bond_refined_d 0.01 r_gen_planes_refined 0.003 r_symmetry_hbond_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1807 Nucleic Acid Atoms Solvent Atoms 28 Heterogen Atoms 5
Software Software Software Name Purpose MAR345 data collection MOLREP phasing REFMAC refinement XDS data reduction XDS data scaling