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Structure of ConA without ligand
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4P9W
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 298 1.8M Ammonium Sulfate, 0.1M MES pH 6.5, 0.01M Cobalt Chloride
Crystal Properties Matthews coefficient Solvent content 2.36 47.91
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.239 α = 90 b = 87.413 β = 90 c = 88.959 γ = 90
Symmetry Space Group I 2 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS EIGER X 16M 2024-06-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL10U2 0.97918 SSRF BL10U2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 1.48 31.19 100 0.108 0.113 0.033 0.999 10.2 11.4 40754
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.48 1.52 100 1.434 1.548 0.575 0.741 7.1
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 MOLECULAR REPLACEMENT THROUGHOUT 1.48 31.19 38671 2010 99.8 0.18537 0.18386 0.192 0.21318 0.2162 RANDOM 16.931
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] 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.387 r_dihedral_angle_4_deg 20.741 r_dihedral_angle_3_deg 12.909 r_dihedral_angle_1_deg 7.663 r_long_range_B_refined 5.865 r_long_range_B_other 5.851 r_scangle_other 4.526 r_scbond_it 3.026 r_scbond_other 3.024 r_mcangle_other 2.858
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.387 r_dihedral_angle_4_deg 20.741 r_dihedral_angle_3_deg 12.909 r_dihedral_angle_1_deg 7.663 r_long_range_B_refined 5.865 r_long_range_B_other 5.851 r_scangle_other 4.526 r_scbond_it 3.026 r_scbond_other 3.024 r_mcangle_other 2.858 r_mcangle_it 2.857 r_mcbond_it 1.795 r_mcbond_other 1.784 r_angle_refined_deg 1.73 r_angle_other_deg 1.514 r_chiral_restr 0.081 r_bond_refined_d 0.013 r_gen_planes_refined 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1809 Nucleic Acid Atoms Solvent Atoms 122 Heterogen Atoms 8
Software Software Software Name Purpose REFMAC refinement Aimless data scaling xia2 data reduction PHASER phasing