☰ Navigation Tabs
Structure of the N-terminal domain of the Flo1 adhesin (N-Flo1p) from the yeast Saccharomyces cerevisiae
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2XJQ PDB ENTRY 2XJQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 293 Protein solution: 50 mM sodium acetate pH 5, 150 mM NaCl, 10 mM CaCl2
Crystallization condition: 2 M NaCl, 10% v/v EtOH, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.65 53.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.8 α = 90 b = 61.77 β = 90 c = 106.73 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 2013-03-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.97950 Diamond I04
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 1.43 40.39 99.9 0.085 13.6 7.2 56735 56735
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 1.43 1.47 99.8 0.647 3 7.2 4114
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 PDB ENTRY 2XJQ 1.43 40.38 53786 53786 2874 99.82 0.13417 0.13417 0.13249 0.1327 0.16527 0.1646 RANDOM 15.15
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 -0.07 0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.875 r_sphericity_free 26.218 r_sphericity_bonded 11.959 r_dihedral_angle_4_deg 11.375 r_dihedral_angle_3_deg 10.148 r_dihedral_angle_1_deg 6.294 r_rigid_bond_restr 5.305 r_angle_refined_deg 2.026 r_angle_other_deg 1 r_chiral_restr 0.156
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.875 r_sphericity_free 26.218 r_sphericity_bonded 11.959 r_dihedral_angle_4_deg 11.375 r_dihedral_angle_3_deg 10.148 r_dihedral_angle_1_deg 6.294 r_rigid_bond_restr 5.305 r_angle_refined_deg 2.026 r_angle_other_deg 1 r_chiral_restr 0.156 r_bond_refined_d 0.022 r_gen_planes_refined 0.013 r_bond_other_d 0.001 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_mcbond_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1878 Nucleic Acid Atoms Solvent Atoms 233 Heterogen Atoms 1
Software Software Software Name Purpose ADSC data collection BALBES phasing REFMAC refinement xia2 data reduction xia2 data scaling