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The Apo crystal Structure of the glycyl-tRNA synthetase
Crystallization Crystal Properties Matthews coefficient Solvent content 3.35 63.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.742 α = 90 b = 91.742 β = 90 c = 247.176 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray CCD ADSC QUANTUM 315 2006-07-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.9795 SSRL BL11-1
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 2.9 50 77.1 0.099 9.1 8.9 18765
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 2.9 3 80.2 0.524 7.8 1906
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 2.9 36.83 18744 978 77.34 0.232 0.23 0.2225 0.271 0.2594 RANDOM 55.392
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] -0.04 -0.04 0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 25.307 r_dihedral_angle_3_deg 15.039 r_dihedral_angle_4_deg 13.646 r_mcangle_it 6.528 r_dihedral_angle_1_deg 5.632 r_scangle_it 4.839 r_mcbond_it 4.607 r_scbond_it 3.296 r_angle_refined_deg 0.756 r_nbtor_refined 0.325
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 25.307 r_dihedral_angle_3_deg 15.039 r_dihedral_angle_4_deg 13.646 r_mcangle_it 6.528 r_dihedral_angle_1_deg 5.632 r_scangle_it 4.839 r_mcbond_it 4.607 r_scbond_it 3.296 r_angle_refined_deg 0.756 r_nbtor_refined 0.325 r_symmetry_hbond_refined 0.315 r_xyhbond_nbd_refined 0.243 r_nbd_refined 0.233 r_symmetry_vdw_refined 0.176 r_chiral_restr 0.062 r_bond_refined_d 0.003 r_gen_planes_refined 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4136 Nucleic Acid Atoms Solvent Atoms 122 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction ADSC data collection HKL-2000 data reduction PHASER phasing