☰ Navigation Tabs
Structural and thermodynamic dissection of specific mannan recognition by a carbohydrate-binding module
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1OF3 PDB ENTRY 1OF3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4.6 1.5 M AMMONIUM SULFATE, 0.1 M SODIUM ACETATE PH 4.6
Crystal Properties Matthews coefficient Solvent content 1.83 32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 31.79 α = 90 b = 48.919 β = 90 c = 96.421 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 CCD M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 ESRF ID14-1
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 1.35 1.42 97.8 0.057 17.5 4.7 31455
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 1.35 1.42 87.3 0.261 2.9 2.5
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 PDB ENTRY 1OF3 1.35 48.22 31455 1680 97.7 0.14 0.138 0.1527 0.17 0.1818 RANDOM 11.94
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] -0.14 -0.02 0.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.375 r_scangle_it 4.606 r_scbond_it 3.125 r_mcangle_it 2.473 r_angle_refined_deg 1.853 r_mcbond_it 1.571 r_angle_other_deg 1.386 r_symmetry_vdw_other 0.346 r_nbd_other 0.26 r_nbd_refined 0.259
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.375 r_scangle_it 4.606 r_scbond_it 3.125 r_mcangle_it 2.473 r_angle_refined_deg 1.853 r_mcbond_it 1.571 r_angle_other_deg 1.386 r_symmetry_vdw_other 0.346 r_nbd_other 0.26 r_nbd_refined 0.259 r_symmetry_vdw_refined 0.251 r_symmetry_hbond_refined 0.188 r_xyhbond_nbd_refined 0.183 r_chiral_restr 0.138 r_nbtor_other 0.088 r_metal_ion_refined 0.066 r_bond_refined_d 0.017 r_gen_planes_other 0.017 r_gen_planes_refined 0.013 r_bond_other_d 0.003 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1411 Nucleic Acid Atoms Solvent Atoms 182 Heterogen Atoms 96
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALEPACK data scaling AMoRE phasing