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1.5 A Crystal Structure of a Conserved Protein of Unknown Function from Corvnebacterium diphtheriae
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 298 0.15M DL-malic acid, 20% PEG 3350, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.24 45.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.735 α = 90 b = 74.914 β = 93.83 c = 36.597 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 2006-03-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.9798 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 1.5 37.5 93.4 0.083 17.78 4.6 29183 27257 2 2 15
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 1.5 1.54 62.94 0.236 3 3.8 2135
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 1.5 37.45 29183 27257 1435 93.4 0.18493 0.18493 0.18357 0.1902 0.21024 0.2126 RANDOM 12.785
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] -0.07 0.33 0.34 -0.23
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.705 r_dihedral_angle_4_deg 16.186 r_dihedral_angle_3_deg 12.486 r_dihedral_angle_1_deg 5.885 r_scangle_it 2.784 r_scbond_it 1.929 r_angle_refined_deg 1.233 r_mcangle_it 1.01 r_mcbond_it 0.959 r_angle_other_deg 0.866
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.705 r_dihedral_angle_4_deg 16.186 r_dihedral_angle_3_deg 12.486 r_dihedral_angle_1_deg 5.885 r_scangle_it 2.784 r_scbond_it 1.929 r_angle_refined_deg 1.233 r_mcangle_it 1.01 r_mcbond_it 0.959 r_angle_other_deg 0.866 r_nbd_refined 0.218 r_symmetry_vdw_other 0.215 r_nbd_other 0.193 r_nbtor_refined 0.172 r_mcbond_other 0.146 r_symmetry_hbond_refined 0.143 r_symmetry_vdw_refined 0.132 r_xyhbond_nbd_refined 0.127 r_nbtor_other 0.085 r_chiral_restr 0.073 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1466 Nucleic Acid Atoms Solvent Atoms 257 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement SBC-Collect data collection HKL-2000 data scaling HKL-3000 phasing SHELXE model building SOLVE phasing RESOLVE phasing ARP/wARP model building