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Crystal structure of a conserved protein of unknown function from Enterococcus faecalis V583
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 277 0.2M NaCl, 0.1M Tris-HCl, 25% w/v PEG 3350, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.79 55.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 104.159 α = 90 b = 61.613 β = 103.94 c = 164.544 γ = 90
Symmetry Space Group P 1 21 1
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 2007-07-02 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97951, 0.97965 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 2.5 43.03 88.8 0.117 22.9 4.1 62694 62694
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 2.5 2.57 54.9 0.559 1.88 3 3223
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 MAD THROUGHOUT 2.5 43.03 59497 59497 3161 88.65 0.18605 0.18605 0.18322 0.1835 0.23972 0.239 RANDOM 55.801
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] -0.63 -0.34 0.19 0.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.485 r_dihedral_angle_3_deg 20.934 r_dihedral_angle_4_deg 18.457 r_dihedral_angle_1_deg 6.226 r_scangle_it 1.586 r_angle_refined_deg 1.546 r_mcangle_it 1.507 r_scbond_it 1.067 r_mcbond_it 0.993 r_nbtor_refined 0.335
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.485 r_dihedral_angle_3_deg 20.934 r_dihedral_angle_4_deg 18.457 r_dihedral_angle_1_deg 6.226 r_scangle_it 1.586 r_angle_refined_deg 1.546 r_mcangle_it 1.507 r_scbond_it 1.067 r_mcbond_it 0.993 r_nbtor_refined 0.335 r_symmetry_vdw_refined 0.281 r_nbd_refined 0.268 r_xyhbond_nbd_refined 0.197 r_symmetry_hbond_refined 0.108 r_chiral_restr 0.104 r_bond_refined_d 0.013 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12576 Nucleic Acid Atoms Solvent Atoms 49 Heterogen Atoms 28
Software Software Software Name Purpose REFMAC refinement SBC-Collect data collection HKL-3000 data reduction HKL-3000 data scaling SHELXD phasing MLPHARE phasing DM phasing RESOLVE phasing HKL-3000 phasing