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Branching Sucrase Brs-B in complex with isomaltopentaose in the active site
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, SITTING DROP 285 0.1M SPG Buffer pH 7, 20% PEG 1500
Crystal Properties Matthews coefficient Solvent content 4.05 69.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 254.047 α = 90 b = 254.047 β = 90 c = 345.743 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M 2018-09-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 1.03987 ESRF ID29
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 3.5 49.94 100 0.204 0.994 3.3 11.5 54073
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.5 3.69 0.885 0.827
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 3.5 49.94 54069 2703 99.948 0.185 0.1837 0.1859 0.2097 0.2092 101.507
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] -0.005 -0.002 -0.005 0.015
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 10.952 r_dihedral_angle_6_deg 10.423 r_dihedral_angle_1_deg 6.176 r_lrange_it 6.143 r_lrange_other 6.143 r_dihedral_angle_2_deg 3.45 r_scangle_it 2.895 r_scangle_other 2.895 r_mcangle_it 2.786 r_mcangle_other 2.786
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 10.952 r_dihedral_angle_6_deg 10.423 r_dihedral_angle_1_deg 6.176 r_lrange_it 6.143 r_lrange_other 6.143 r_dihedral_angle_2_deg 3.45 r_scangle_it 2.895 r_scangle_other 2.895 r_mcangle_it 2.786 r_mcangle_other 2.786 r_scbond_it 1.626 r_scbond_other 1.626 r_mcbond_it 1.586 r_mcbond_other 1.586 r_angle_refined_deg 0.812 r_angle_other_deg 0.363 r_symmetry_nbd_other 0.212 r_nbd_refined 0.191 r_nbtor_refined 0.172 r_nbd_other 0.151 r_xyhbond_nbd_refined 0.12 r_metal_ion_refined 0.093 r_ncsr_local_group_1 0.092 r_symmetry_nbd_refined 0.089 r_symmetry_nbtor_other 0.074 r_symmetry_xyhbond_nbd_refined 0.042 r_chiral_restr 0.041 r_symmetry_xyhbond_nbd_other 0.009 r_bond_refined_d 0.002 r_gen_planes_refined 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 18169 Nucleic Acid Atoms Solvent Atoms 4 Heterogen Atoms 463
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing