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Methanococcus Maripaludis Phosphoseryl-tRNA synthetase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 298 Well:4-6% PEG 35,000, 5 mM DTT, 100 mM Sodium MES (pH 6.5), 5% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.9 57.54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 119.172 α = 90 b = 133.943 β = 90 c = 208.382 γ = 90
Symmetry Space Group P 21 21 21
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 ADSC QUANTUM 210 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD ADSC QUANTUM 315 M MAD 3 1 x-ray 100 CCD ADSC QUANTUM 210 M SINGLE WAVELENGTH 1,2,3 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 1.00390 ALS 8.2.2 2 SYNCHROTRON ALS BEAMLINE 8.2.2 1.214 ALS 8.2.2 3 SYNCHROTRON ALS BEAMLINE 8.2.2 1.0716 ALS 8.2.2
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 1,2,3 3.2 50 98.8 0.053 11 3.7 53862 53215 -3
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) 1,2,3 3.2 3.31 94.4 0.907 1.1 3.5 4992
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 MIR THROUGHOUT 3.228 50 53170 2697 97.86 0.292 0.292 0.292 0.306 0.3048 RANDOM 115.697
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] -1.52 -1.63 3.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.031 r_dihedral_angle_3_deg 18.539 r_dihedral_angle_4_deg 10.616 r_dihedral_angle_1_deg 6.023 r_angle_refined_deg 1.04 r_scangle_it 0.976 r_angle_other_deg 0.842 r_scbond_it 0.732 r_symmetry_vdw_refined 0.588 r_symmetry_vdw_other 0.521
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.031 r_dihedral_angle_3_deg 18.539 r_dihedral_angle_4_deg 10.616 r_dihedral_angle_1_deg 6.023 r_angle_refined_deg 1.04 r_scangle_it 0.976 r_angle_other_deg 0.842 r_scbond_it 0.732 r_symmetry_vdw_refined 0.588 r_symmetry_vdw_other 0.521 r_mcangle_it 0.498 r_mcbond_it 0.378 r_nbd_refined 0.224 r_nbd_other 0.184 r_nbtor_refined 0.182 r_xyhbond_nbd_refined 0.149 r_mcbond_other 0.146 r_nbtor_other 0.086 r_symmetry_hbond_refined 0.083 r_chiral_restr 0.062 r_xyhbond_nbd_other 0.033 r_bond_refined_d 0.008 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13538 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SOLVE phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection HKL-2000 data reduction