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N-terminally truncated dextransucrase DSR-E from Leuconostoc mesenteroides NRRL B-1299 in complex with isomaltotriose
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3TTQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 285 15% PEG 3,350, 0.1M ammonium nitrate
Crystal Properties Matthews coefficient Solvent content 2.54 51.67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.29 α = 90 b = 100.1 β = 90 c = 184.43 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 315r 2011-11-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.87260 ESRF ID23-1
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 2.18 48.3 100 0.111 11 5.4 66927 25.9
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 2.18 2.3 100 3.6 5.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 MOLECULAR REPLACEMENT THROUGHOUT 3TTQ 2.18 43.99 63475 3388 99.95 0.1687 0.16625 0.1736 0.21305 0.2173 RANDOM 27.877
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] 0.02 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.373 r_dihedral_angle_4_deg 15.381 r_dihedral_angle_3_deg 12.973 r_dihedral_angle_1_deg 6.522 r_long_range_B_refined 6.52 r_long_range_B_other 6.443 r_scangle_other 4.536 r_mcangle_it 3.601 r_mcangle_other 3.601 r_scbond_it 2.894
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.373 r_dihedral_angle_4_deg 15.381 r_dihedral_angle_3_deg 12.973 r_dihedral_angle_1_deg 6.522 r_long_range_B_refined 6.52 r_long_range_B_other 6.443 r_scangle_other 4.536 r_mcangle_it 3.601 r_mcangle_other 3.601 r_scbond_it 2.894 r_scbond_other 2.894 r_mcbond_it 2.351 r_mcbond_other 2.35 r_angle_refined_deg 1.662 r_angle_other_deg 1.015 r_chiral_restr 0.102 r_bond_refined_d 0.017 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.001 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8154 Nucleic Acid Atoms Solvent Atoms 715 Heterogen Atoms 44
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling PHASER phasing