☰ Navigation Tabs
Raffinose and panose binding protein from Bifidobacterium animalis subsp. lactis Bl-04, bound with panose
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4ZZA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 8.5 278 0.1 M Tris pH 8.5, 25% PEG 4000, 0.8M magnesium chloride
Crystal Properties Matthews coefficient Solvent content 2.01 38.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.88 α = 90 b = 91.33 β = 90 c = 142.05 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 PIXEL PSI PILATUS 6M 2011-10-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 0.97734 SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 1.76 23.2 99.1 0.082 0.098 10.64 3.4 71009 -3 16.58
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.76 1.81 99.3 0.661 0.794 2.05 3.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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 FREE R-VALUE 4ZZA 1.76 23.113 1.99 70940 3538 99.13 0.1602 0.1578 0.1598 0.2049 0.208 Random selection 21.2313
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 13.906 f_angle_d 0.959 f_chiral_restr 0.041 f_bond_d 0.005 f_plane_restr 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5941 Nucleic Acid Atoms Solvent Atoms 987 Heterogen Atoms 81
Software Software Software Name Purpose xia2 data reduction XSCALE data scaling PHASER phasing PHENIX refinement PDB_EXTRACT data extraction