☰ Navigation Tabs
Structure of carbohydrate recognition domain with GlcNAc bound
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6RYJ pdbid 6RYJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 293 2.5 M ammonium sulfate, 0.1 M tris
Crystal Properties Matthews coefficient Solvent content 2.33 47.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.225 α = 90 b = 50.225 β = 90 c = 51.925 γ = 90
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 MAR CCD 165 mm 2004-06-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX10.1 1.488 SRS PX10.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.457 25.106 80.8 0.036 0.036 0.054 31.5 6.5 18321
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.46 1.54 21.8 0.121 0.121 0.186 2.8 2.6
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 pdbid 6RYJ 1.46 25.106 17355 945 80.79 0.1625 0.1614 0.1617 0.1841 0.1836 RANDOM 14.2
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] -0.23 -0.23 0.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.414 r_dihedral_angle_4_deg 19.271 r_dihedral_angle_3_deg 11.027 r_dihedral_angle_1_deg 6.704 r_angle_refined_deg 1.38 r_angle_other_deg 0.974 r_chiral_restr 0.068 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 r_gen_planes_other 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.414 r_dihedral_angle_4_deg 19.271 r_dihedral_angle_3_deg 11.027 r_dihedral_angle_1_deg 6.704 r_angle_refined_deg 1.38 r_angle_other_deg 0.974 r_chiral_restr 0.068 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 940 Nucleic Acid Atoms Solvent Atoms 149 Heterogen Atoms 32
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction REFMAC phasing