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Crystal structure of Peptide chain release factor 1 (RF-1) (SMU.1085) from Streptococcus mutans at 2.34 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION,SITTING DROP,NANODROP 6.5 277 13.0% PEG-8000, 0.2M Ca(OAc)2, 20.0% Glycerol, 0.1M Cacodylate pH 6.5, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.18 61.03
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.444 α = 90 b = 69.444 β = 90 c = 188.165 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 100 CCD ADSC QUANTUM 210 KOHZU: Double Crystal Si(111) 2005-01-21 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.1 0.99187,0.97960,0.97942 ALS 8.2.1
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 2.34 28.58 99.6 0.088 8.1 3.5 20155
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 2.34 2.47 99.8 0.583 1.3 3.5
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 (All) 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 MAD THROUGHOUT 2.34 28.58 19101 1033 99.27 0.223 0.22326 0.221 0.2421 0.275 0.2872 RANDOM 51.292
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] 2.18 2.18 -4.36
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.18 r_dihedral_angle_4_deg 20.346 r_dihedral_angle_3_deg 16.843 r_scangle_it 6.639 r_dihedral_angle_1_deg 6.109 r_scbond_it 4.814 r_mcangle_it 2.592 r_mcbond_it 1.65 r_angle_refined_deg 1.255 r_angle_other_deg 0.74
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.18 r_dihedral_angle_4_deg 20.346 r_dihedral_angle_3_deg 16.843 r_scangle_it 6.639 r_dihedral_angle_1_deg 6.109 r_scbond_it 4.814 r_mcangle_it 2.592 r_mcbond_it 1.65 r_angle_refined_deg 1.255 r_angle_other_deg 0.74 r_mcbond_other 0.315 r_nbd_refined 0.206 r_nbtor_refined 0.175 r_nbd_other 0.173 r_symmetry_vdw_refined 0.172 r_symmetry_vdw_other 0.162 r_xyhbond_nbd_refined 0.114 r_symmetry_hbond_refined 0.114 r_nbtor_other 0.084 r_chiral_restr 0.068 r_bond_refined_d 0.013 r_gen_planes_refined 0.003 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2486 Nucleic Acid Atoms Solvent Atoms 61 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement SCALA data scaling PDB_EXTRACT data extraction XDS data reduction CCP4 data scaling SHARP phasing