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Crystal structure of Ypt7 covalently modified with GTP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 277 20% (w/v) PEG3350, 0.2 M LiCl, 10mM Yttrium(III)-chlorid
Crystal Properties Matthews coefficient Solvent content 1.94 36.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 32.97 α = 90 b = 53.16 β = 106.35 c = 46.91 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 PIXEL DECTRIS PILATUS 6M 2013-09-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 1.0 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.9 45.01 99.5 0.07 11.15 3.33 12310
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 2 0.362
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 THROUGHOUT 1.9 45.01 11694 616 99.58 0.17758 0.17472 0.1812 0.23398 0.2412 RANDOM 26.421
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] -0.12 2.57 -0.29 1.85
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.163 r_dihedral_angle_4_deg 22.671 r_dihedral_angle_3_deg 13.706 r_dihedral_angle_1_deg 6.444 r_angle_refined_deg 1.91 r_angle_other_deg 1.212 r_chiral_restr 0.156 r_bond_refined_d 0.019 r_gen_planes_refined 0.009 r_bond_other_d 0.007
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.163 r_dihedral_angle_4_deg 22.671 r_dihedral_angle_3_deg 13.706 r_dihedral_angle_1_deg 6.444 r_angle_refined_deg 1.91 r_angle_other_deg 1.212 r_chiral_restr 0.156 r_bond_refined_d 0.019 r_gen_planes_refined 0.009 r_bond_other_d 0.007 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_mcbond_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1356 Nucleic Acid Atoms Solvent Atoms 52 Heterogen Atoms 44
Software Software Software Name Purpose REFMAC refinement