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Crystal structure of a Crenomytilus grayanus lectin
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 293 0.2 M imidazole malate, 25%(w/v) PEG4000
Crystal Properties Matthews coefficient Solvent content 2.59 52.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.841 α = 90 b = 71.062 β = 90 c = 93.967 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 100 CCD RAYONIX MX225HE 2014-12-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL12B2 1.0 SPring-8 BL12B2
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 1.08 30 98.3 0.077 23.9 6.4 149358
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.08 1.12 99.2 2.2 5.9
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 SAD THROUGHOUT 1.08 30 141923 7345 98.29 0.11453 0.11367 0.1157 0.13131 0.1328 RANDOM 11.412
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] -0.12 0.39 -0.27
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 39.225 r_dihedral_angle_2_deg 31.631 r_dihedral_angle_4_deg 17.311 r_dihedral_angle_3_deg 12.005 r_sphericity_bonded 9.663 r_dihedral_angle_1_deg 7.568 r_long_range_B_refined 5.059 r_long_range_B_other 3.955 r_scangle_other 2.856 r_scbond_other 2.268
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 39.225 r_dihedral_angle_2_deg 31.631 r_dihedral_angle_4_deg 17.311 r_dihedral_angle_3_deg 12.005 r_sphericity_bonded 9.663 r_dihedral_angle_1_deg 7.568 r_long_range_B_refined 5.059 r_long_range_B_other 3.955 r_scangle_other 2.856 r_scbond_other 2.268 r_scbond_it 2.265 r_angle_refined_deg 1.467 r_rigid_bond_restr 1.394 r_angle_other_deg 1.068 r_mcangle_other 1.013 r_mcangle_it 0.983 r_mcbond_it 0.856 r_mcbond_other 0.815 r_chiral_restr 0.232 r_gen_planes_refined 0.009 r_bond_refined_d 0.008 r_bond_other_d 0.004 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2390 Nucleic Acid Atoms Solvent Atoms 555 Heterogen Atoms 48
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling SHELXCD phasing