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Crystal structure of N-glycosylated, C-terminally truncated human glypican-1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8 12-14% PEG 6000, 0.1 M TRIS-HCL, 0.2 M CACL2, PH 8.0
Crystal Properties Matthews coefficient Solvent content 2.7 54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.17 α = 90 b = 168.63 β = 94.59 c = 147.76 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 MARRESEARCH HORIZONTALLY FOCUSING MIRROR 2011-02-14 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I911-2 MAX II I911-2
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 2.49 30 98.9 0.08 11.6 4.1 79825 45.95
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 2.49 2.64 94.9 0.68 2.4 3.5
Refinement Statistics Diffraction ID Structure Solution 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) Mean Isotropic B X-RAY DIFFRACTION MAD NONE 2.55 29.714 74535 3753 99.66 0.253 0.2509 0.2499 0.292 0.2888
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] -8.306 -2.7859 -10.4554 18.7615
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 13.643 f_angle_d 0.717 f_chiral_restr 0.053 f_bond_d 0.003 f_plane_restr 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12486 Nucleic Acid Atoms Solvent Atoms 242 Heterogen Atoms 84
Software Software Software Name Purpose PHENIX refinement XDS data reduction XSCALE data scaling Auto-Rickshaw phasing