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Crystal structure of a human glycolipid transfer protein in apo-form
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.5 293 PEG 3350, potassium phosphate, pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.12 41.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.439 α = 90 b = 35.259 β = 115.82 c = 57.507 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 IMAGE PLATE RIGAKU RAXIS HTC mirrors 2003-06-25 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD ADSC QUANTUM 4 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH3R 1.5418 2 SYNCHROTRON APS BEAMLINE 19-BM APS 19-BM
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 1.65 50 97.5 0.063 4.6 23782 23776
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) 1.65 1.68 0.34 1051
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1.65 20 23167 22569 1202 97.42 0.1753 0.17536 0.17249 0.22567 0.2727 RANDOM 26.075
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] -1.06 -0.21 -0.19 1.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.43 r_scangle_it 4.468 r_scbond_it 2.736 r_angle_refined_deg 1.694 r_mcangle_it 1.653 r_angle_other_deg 1.627 r_mcbond_it 0.903 r_symmetry_vdw_other 0.304 r_nbd_other 0.246 r_nbd_refined 0.245
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.43 r_scangle_it 4.468 r_scbond_it 2.736 r_angle_refined_deg 1.694 r_mcangle_it 1.653 r_angle_other_deg 1.627 r_mcbond_it 0.903 r_symmetry_vdw_other 0.304 r_nbd_other 0.246 r_nbd_refined 0.245 r_xyhbond_nbd_refined 0.179 r_symmetry_hbond_refined 0.164 r_nbtor_other 0.111 r_chiral_restr 0.083 r_symmetry_vdw_refined 0.028 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1605 Nucleic Acid Atoms Solvent Atoms 243 Heterogen Atoms 6
Software Software Software Name Purpose REFMAC refinement CrystalClear data reduction SCALEPACK data scaling SOLVE phasing