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Crystal structure of selenomethionine-labelled RafE from Streptococcus pneumoniae
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.1 295 1.8M Ammonium sulfate, 0.1M Na citrate pH 5.1, 0.2M MgCl2, VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 3.64 66.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 144.538 α = 90 b = 144.538 β = 90 c = 224.082 γ = 120
Symmetry Space Group P 61 2 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 4 2004-12-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX14.2 0.9792 SRS PX14.2
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 2.9 29.51 100 0.083 15.2 11.54 57961
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 3 100 0.417 5.4 11.56 5783
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-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT 2.9 29.51 31023 1568 99.18 0.25 0.248 0.29 0.2855 RANDOM 75.269
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] 3.2 1.6 3.2 -4.8
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.554 r_dihedral_angle_3_deg 23.485 r_dihedral_angle_4_deg 19.57 r_mcbond_other 18.932 r_dihedral_angle_1_deg 8.88 r_scangle_it 7.495 r_mcangle_it 7.065 r_scbond_it 4.789 r_angle_other_deg 4.42 r_mcbond_it 4.243
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.554 r_dihedral_angle_3_deg 23.485 r_dihedral_angle_4_deg 19.57 r_mcbond_other 18.932 r_dihedral_angle_1_deg 8.88 r_scangle_it 7.495 r_mcangle_it 7.065 r_scbond_it 4.789 r_angle_other_deg 4.42 r_mcbond_it 4.243 r_angle_refined_deg 2.239 r_symmetry_hbond_refined 0.429 r_symmetry_vdw_refined 0.387 r_nbd_other 0.296 r_symmetry_vdw_other 0.283 r_nbd_refined 0.279 r_nbtor_refined 0.215 r_chiral_restr 0.213 r_xyhbond_nbd_refined 0.201 r_nbtor_other 0.13 r_xyhbond_nbd_other 0.074 r_bond_refined_d 0.022 r_gen_planes_other 0.008 r_gen_planes_refined 0.006 r_bond_other_d
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6042 Nucleic Acid Atoms Solvent Atoms 2 Heterogen Atoms 1
Software Software Software Name Purpose d*TREK data scaling REFMAC refinement PDB_EXTRACT data extraction