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The structure of Arabidopsis thaliana FUT1 Mutant R284K in complex with GDP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5KOE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 7 mg/mL protein in 0.1 M MES pH 6.0 to 7.0 and 16% to 23% w/v PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.4 48.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.224 α = 90 b = 112.957 β = 104.48 c = 87.824 γ = 90
Symmetry Space Group P 1 21 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 CCD Bruker Platinum 135 Helios mirrors 2015-08-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER AXS MICROSTAR 1.54178
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 2.2 85.03 91.2 0.1077 6 2.71 47518
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 2.2 2.3 84.5 0.4809 1.14 1.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 5KOE 2.2 85.03 45191 2288 91 0.25631 0.25259 0.2522 0.32726 0.3265 RANDOM 27.028
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] -4.77 -2.53 3.59 2.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.661 r_dihedral_angle_4_deg 19.772 r_dihedral_angle_3_deg 17.469 r_dihedral_angle_1_deg 7.58 r_long_range_B_refined 6.265 r_long_range_B_other 6.146 r_angle_refined_deg 2.094 r_mcangle_it 1.597 r_mcangle_other 1.597 r_scangle_other 1.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.661 r_dihedral_angle_4_deg 19.772 r_dihedral_angle_3_deg 17.469 r_dihedral_angle_1_deg 7.58 r_long_range_B_refined 6.265 r_long_range_B_other 6.146 r_angle_refined_deg 2.094 r_mcangle_it 1.597 r_mcangle_other 1.597 r_scangle_other 1.35 r_angle_other_deg 1.192 r_mcbond_it 0.86 r_mcbond_other 0.86 r_scbond_it 0.723 r_scbond_other 0.723 r_chiral_restr 0.12 r_bond_refined_d 0.021 r_gen_planes_refined 0.01 r_gen_planes_other 0.003 r_bond_other_d 0.002 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 7117 Nucleic Acid Atoms Solvent Atoms 610 Heterogen Atoms 78
Software Software Software Name Purpose REFMAC refinement PROTEUM PLUS data reduction PROTEUM PLUS data scaling MOLREP phasing