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X-ray crystal structure of the mouse CMP-sialic acid transporter in complex with CMP-sialic acid, by lipidic cubic phase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 LIPIDIC CUBIC PHASE 293.15 28.05% PEG 350 MME, 40 mM Tris pH 8.0, and 40 mM NaCl
Crystal Properties Matthews coefficient Solvent content 2.33 47.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 140.096 α = 90 b = 50.123 β = 109.25 c = 50.419 γ = 90
Symmetry Space Group C 1 2 1
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 2018-03-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 1.0332 APS 23-ID-B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.75 48 99.8 6 4.1 8305
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 2.75 2.85
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 2.75 48 8305 403 99.75 0.25718 0.25627 0.2619 0.27923 0.2767 RANDOM 77.613
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] -0.21 -1.83 0.03 1.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.454 r_dihedral_angle_3_deg 12.358 r_dihedral_angle_1_deg 4.813 r_long_range_B_refined 4.455 r_long_range_B_other 4.455 r_scangle_other 2.57 r_mcangle_it 2.448 r_mcangle_other 2.447 r_dihedral_angle_4_deg 2.412 r_scbond_it 1.502
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.454 r_dihedral_angle_3_deg 12.358 r_dihedral_angle_1_deg 4.813 r_long_range_B_refined 4.455 r_long_range_B_other 4.455 r_scangle_other 2.57 r_mcangle_it 2.448 r_mcangle_other 2.447 r_dihedral_angle_4_deg 2.412 r_scbond_it 1.502 r_scbond_other 1.502 r_mcbond_other 1.443 r_mcbond_it 1.442 r_angle_refined_deg 1.03 r_angle_other_deg 0.81 r_chiral_restr 0.043 r_bond_refined_d 0.007 r_gen_planes_refined 0.003 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 2244 Nucleic Acid Atoms Solvent Atoms 3 Heterogen Atoms 41
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing