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Crystal structure of an uncharacterized conserved protein from Listeria innocua
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 294 0.1M HEPES pH 7.5, 1.4M tri-Sodium citrate, VAPOR DIFFUSION, SITTING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.38 48.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.506 α = 90 b = 68.108 β = 90 c = 69.853 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 315 Mirrors 2007-08-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97940 APS 19-ID
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 1.6 40 97.2 0.077 26.6 6 31607 31607
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 1.6 1.64 82.2 0.369 2.1
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 THROUGHOUT 1.6 30 31607 31539 1009 97.14 0.175 0.171 0.17 0.1772 0.198 0.2055 RANDOM 13.389
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] -0.46 0.55 -0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.296 r_dihedral_angle_4_deg 14.912 r_dihedral_angle_3_deg 11.407 r_dihedral_angle_1_deg 5.837 r_scangle_it 3.099 r_scbond_it 2.258 r_angle_refined_deg 1.318 r_mcangle_it 1.256 r_mcbond_it 1.13 r_angle_other_deg 0.802
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.296 r_dihedral_angle_4_deg 14.912 r_dihedral_angle_3_deg 11.407 r_dihedral_angle_1_deg 5.837 r_scangle_it 3.099 r_scbond_it 2.258 r_angle_refined_deg 1.318 r_mcangle_it 1.256 r_mcbond_it 1.13 r_angle_other_deg 0.802 r_symmetry_vdw_other 0.261 r_mcbond_other 0.225 r_nbd_refined 0.206 r_nbd_other 0.189 r_nbtor_refined 0.179 r_symmetry_hbond_refined 0.166 r_xyhbond_nbd_refined 0.145 r_symmetry_vdw_refined 0.143 r_nbtor_other 0.086 r_chiral_restr 0.078 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1685 Nucleic Acid Atoms Solvent Atoms 295 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction SBC-Collect data collection HKL-3000 data reduction HKL-3000 data scaling HKL2Map phasing SHELXCD phasing SHELXE model building SHELXD phasing ARP/wARP model building