☰ Navigation Tabs
Structure of the human Langerin carbohydrate recognition domain in complex with mannose
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.9 293 Protein: 10mg/ml Langerin in 10 mM Tris/HCl pH 7.5, 5 mM Mannose; Reservoir: 0.1 M Na-cacodylate, 13 %(w/v) PEG4000, 0.1 M MgCl2, 5mM CaCl2, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.12 41.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.71 α = 90 b = 79.71 β = 90 c = 89.98 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 MARMOSAIC 225 mm CCD 2005-11-15 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.9796, 0.9798, 0.9080 BESSY 14.1
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 1.5 30 99.3 0.042 18.5 4.1 89165 -3 24.3
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) 1.5 1.6 98.8 0.336 4 4.1 15536
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MAD THROUGHOUT 1.5 30 87378 1789 99.31 0.17292 0.17221 0.17 0.20742 0.2057 RANDOM 22.341
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] -0.07 -0.07 0.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.086 r_dihedral_angle_3_deg 12.44 r_dihedral_angle_4_deg 8.833 r_dihedral_angle_1_deg 6.863 r_scangle_it 4.56 r_scbond_it 3.161 r_mcangle_it 1.898 r_angle_refined_deg 1.862 r_mcbond_it 1.174 r_chiral_restr 0.132
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.086 r_dihedral_angle_3_deg 12.44 r_dihedral_angle_4_deg 8.833 r_dihedral_angle_1_deg 6.863 r_scangle_it 4.56 r_scbond_it 3.161 r_mcangle_it 1.898 r_angle_refined_deg 1.862 r_mcbond_it 1.174 r_chiral_restr 0.132 r_bond_refined_d 0.021 r_gen_planes_refined 0.011 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4279 Nucleic Acid Atoms Solvent Atoms 593 Heterogen Atoms 52
Software Software Software Name Purpose MAR345 data collection SHELXD phasing SHARP phasing REFMAC refinement XDS data reduction XSCALE data scaling