☰ Navigation Tabs
X-ray structure of the N-terminal domain of the flocculin Flo5 from Saccharomyces cerevisiae in complex with calcium and a1,2-mannobiose
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other UNPUBLISHED STRUCTURAL DATA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 0.5 M NACL, 100 MM BISTRIS-PROPANE PH 7.5, 20% PEG 4000
Crystal Properties Matthews coefficient Solvent content 2.77 55.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.45 α = 90 b = 61.96 β = 90 c = 106.53 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 4 2009-05-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 ESRF ID14-2
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 1.24 19.44 93.7 0.04 20.5 3.6 85499 -3 10.6
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 1.24 1.3 72.4 0.44 2.9 3.2
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(Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT UNPUBLISHED STRUCTURAL DATA 1.3 19.44 72600 1374 96.86 0.12344 0.12292 0.1364 0.15209 0.1582 RANDOM 11.452
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] 0.08 0.25 -0.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.22 r_dihedral_angle_3_deg 11.326 r_dihedral_angle_4_deg 6.515 r_dihedral_angle_1_deg 5.825 r_scangle_it 4.123 r_scbond_it 2.924 r_angle_refined_deg 2.2 r_mcangle_it 2.161 r_angle_other_deg 1.967 r_mcbond_it 1.383
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.22 r_dihedral_angle_3_deg 11.326 r_dihedral_angle_4_deg 6.515 r_dihedral_angle_1_deg 5.825 r_scangle_it 4.123 r_scbond_it 2.924 r_angle_refined_deg 2.2 r_mcangle_it 2.161 r_angle_other_deg 1.967 r_mcbond_it 1.383 r_rigid_bond_restr 1.114 r_mcbond_other 0.449 r_chiral_restr 0.113 r_bond_refined_d 0.012 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.002 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1928 Nucleic Acid Atoms Solvent Atoms 444 Heterogen Atoms 28
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling REFMAC phasing