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Crystal structure of human prolyl-tRNA synthetase in complex with halofuginone and ATP analogue
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 303 20% PEG 3350, 0.6 M CaCl2, 50 mM HEPES , pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 303K
Crystal Properties Matthews coefficient Solvent content 2.37 48.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.544 α = 90 b = 93.1 β = 107.95 c = 87.004 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 173 CCD ADSC QUANTUM 315 2012-06-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL7-1 1.000 SSRL BL7-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 50 73215
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.03 98.5
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 46.43 69440 3678 98.48 0.20498 0.20379 0.2039 0.22725 0.2287 RANDOM 49.541
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] -1.55 0.03 0.96 0.6
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.588 r_dihedral_angle_4_deg 15.802 r_dihedral_angle_3_deg 14.044 r_dihedral_angle_1_deg 5.461 r_scangle_it 1.862 r_scbond_it 1.134 r_angle_refined_deg 1.065 r_mcangle_it 0.669 r_mcbond_it 0.344 r_chiral_restr 0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.588 r_dihedral_angle_4_deg 15.802 r_dihedral_angle_3_deg 14.044 r_dihedral_angle_1_deg 5.461 r_scangle_it 1.862 r_scbond_it 1.134 r_angle_refined_deg 1.065 r_mcangle_it 0.669 r_mcbond_it 0.344 r_chiral_restr 0.07 r_bond_refined_d 0.007 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7610 Nucleic Acid Atoms Solvent Atoms 204 Heterogen Atoms 114
Software Software Software Name Purpose Blu-Ice data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling