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Crystal Structure of D48V||A47D mutant of Human Glycolipid Transfer Protein complexed with 3-O-sulfo-galactosylceramide containing nervonoyl acyl chain (24:1)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.1 273 15-20% PEG 3350, pH 5.1, VAPOR DIFFUSION, HANGING DROP, temperature 273K
Crystal Properties Matthews coefficient Solvent content 2.22 44.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.871 α = 90 b = 48.128 β = 123.82 c = 69.086 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 IMAGE PLATE MAR scanner 345 mm plate 2011-03-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER AXS MICROSTAR
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 2.1 20 96 0.05 14.2 4.6 11907
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 2.1 2.17 93.7 0.55 4.6
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 2.1 14.98 11300 570 96.08 0.18378 0.18191 0.1889 0.21881 0.2133 RANDOM 51.935
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] -0.47 -0.14 0.23 0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.389 r_dihedral_angle_4_deg 22.258 r_dihedral_angle_3_deg 16.182 r_dihedral_angle_1_deg 6.322 r_scangle_it 2.849 r_scbond_it 2.031 r_angle_refined_deg 1.658 r_mcangle_it 1.186 r_mcbond_it 0.967 r_angle_other_deg 0.962
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.389 r_dihedral_angle_4_deg 22.258 r_dihedral_angle_3_deg 16.182 r_dihedral_angle_1_deg 6.322 r_scangle_it 2.849 r_scbond_it 2.031 r_angle_refined_deg 1.658 r_mcangle_it 1.186 r_mcbond_it 0.967 r_angle_other_deg 0.962 r_symmetry_vdw_other 0.242 r_nbd_refined 0.215 r_mcbond_other 0.214 r_symmetry_hbond_refined 0.213 r_nbd_other 0.187 r_nbtor_refined 0.186 r_symmetry_vdw_refined 0.176 r_xyhbond_nbd_refined 0.151 r_chiral_restr 0.095 r_nbtor_other 0.089 r_bond_refined_d 0.017 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1670 Nucleic Acid Atoms Solvent Atoms 63 Heterogen Atoms 61
Software Software Software Name Purpose SCALEPACK data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction DENZO data reduction