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Crystal structure of the S1 domain of RNase E from E. coli (Pb derivative)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 291 PEG 8000, sodium cacodylate, sodium acetate, glycerol, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.6 51.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.58 α = 90 b = 70.58 β = 90 c = 87.902 γ = 90
Symmetry Space Group P 41 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 4 2003-06-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X8C 0.947390 NSLS X8C
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 25 98.5 0.091 17.5 6.925 15387 15387 22.98
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) 2 2.07 86.7 0.338 2.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 SAD THROUGHOUT 2 25 14555 14555 783 98.49 0.18485 0.18485 0.18229 0.183 0.23223 0.24 RANDOM 20.749
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] 0.9 0.9 -1.79
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.945 r_scangle_it 4.315 r_scbond_it 2.519 r_mcangle_it 1.752 r_angle_refined_deg 1.417 r_mcbond_it 0.946 r_angle_other_deg 0.746 r_symmetry_vdw_other 0.286 r_nbd_other 0.25 r_nbd_refined 0.206
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.945 r_scangle_it 4.315 r_scbond_it 2.519 r_mcangle_it 1.752 r_angle_refined_deg 1.417 r_mcbond_it 0.946 r_angle_other_deg 0.746 r_symmetry_vdw_other 0.286 r_nbd_other 0.25 r_nbd_refined 0.206 r_xyhbond_nbd_refined 0.173 r_symmetry_hbond_refined 0.157 r_symmetry_vdw_refined 0.141 r_nbtor_other 0.086 r_chiral_restr 0.083 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_gen_planes_other 0.003 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1327 Nucleic Acid Atoms Solvent Atoms 229 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling SOLVE phasing