☰ Navigation Tabs
Crystal structure of the goat signalling protein with a bound trisaccharide reveals that Trp78 reduces the carbohydrate binding site to half
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1QZO PDB ENTRY 1QZO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.8 298 25mM Tris HCl, 50mM NaCl, 19% ethanol, pH 7.8, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
Crystal Properties Matthews coefficient Solvent content 2.8 56.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.204 α = 90 b = 66.689 β = 90 c = 108.072 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 298 IMAGE PLATE MARRESEARCH MIRROR 2005-05-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU300 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 3.05 56 98.6 0.14 7.7 9023 36.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.05 3.16 99.8 0.425 2
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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1QZO 3.05 56 9023 8590 433 98.61 0.196 0.19554 0.19346 0.23583 RANDOM 35.895
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] 0.99 -1.06 0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 20.79 r_scangle_it 5.703 r_scbond_it 3.468 r_mcangle_it 2.936 r_dihedral_angle_1_deg 2.616 r_angle_refined_deg 2.316 r_mcbond_it 1.562 r_angle_other_deg 1.344 r_nbtor_other 0.284 r_nbd_refined 0.269
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 20.79 r_scangle_it 5.703 r_scbond_it 3.468 r_mcangle_it 2.936 r_dihedral_angle_1_deg 2.616 r_angle_refined_deg 2.316 r_mcbond_it 1.562 r_angle_other_deg 1.344 r_nbtor_other 0.284 r_nbd_refined 0.269 r_nbd_other 0.265 r_symmetry_vdw_other 0.231 r_symmetry_vdw_refined 0.23 r_xyhbond_nbd_refined 0.164 r_chiral_restr 0.153 r_xyhbond_nbd_other 0.065 r_symmetry_hbond_refined 0.034 r_bond_refined_d 0.027 r_gen_planes_refined 0.014 r_gen_planes_other 0.006 r_bond_other_d 0.004 r_dihedral_angle_2_deg r_dihedral_angle_4_deg r_nbtor_refined r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2877 Nucleic Acid Atoms Solvent Atoms 44 Heterogen Atoms 81
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing