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Crystal structure of the carbohydrate recognition domain of human Langerin
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 400mM MgCl2, 25% PEG 3350, 100mM HEPES pH 7, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.99 38.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.555 α = 90 b = 79.555 β = 90 c = 90.144 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 ADSC QUANTUM 315 mirrors 2007-09-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM30A 0.97966 ESRF BM30A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.5 50 99.4 0.044 0.044 25.4 7.2 90252 89721 -3 24.1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.5 1.59 98.7 0.331 0.331 6.1 6.9 14378
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MIRAS THROUGHOUT 1.5 47.72 90252 89582 4474 99.6 0.192 0.192 0.189 0.1875 0.236 0.2324 RANDOM 20.873
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] -0.11 -0.11 0.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.892 r_dihedral_angle_4_deg 16.544 r_dihedral_angle_3_deg 12.927 r_sphericity_free 12.201 r_dihedral_angle_1_deg 9.556 r_scangle_it 2.984 r_scbond_it 2.054 r_mcangle_it 1.71 r_angle_refined_deg 1.516 r_mcbond_it 1.019
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.892 r_dihedral_angle_4_deg 16.544 r_dihedral_angle_3_deg 12.927 r_sphericity_free 12.201 r_dihedral_angle_1_deg 9.556 r_scangle_it 2.984 r_scbond_it 2.054 r_mcangle_it 1.71 r_angle_refined_deg 1.516 r_mcbond_it 1.019 r_nbtor_refined 0.317 r_nbd_refined 0.215 r_symmetry_vdw_refined 0.198 r_xyhbond_nbd_refined 0.153 r_metal_ion_refined 0.143 r_symmetry_hbond_refined 0.143 r_chiral_restr 0.111 r_bond_refined_d 0.014 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4457 Nucleic Acid Atoms Solvent Atoms 873 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement Xnemo data collection XDS data reduction autoSHARP phasing