☰ Navigation Tabs
Crystal Structure of the Conserved Protein of Unknown Function from Porphyromonas gingivalis
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 275 5% iso-propanol, 0.1 M HEPES 7.5, 10 % PEG 4K, VAPOR DIFFUSION, SITTING DROP, temperature 275K
Crystal Properties Matthews coefficient Solvent content 2.06 40.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.028 α = 90 b = 50.028 β = 90 c = 186.912 γ = 90
Symmetry Space Group P 43 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 315 mirrors 2006-02-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97933 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 1.91 34.76 98.6 0.115 10.5 20.7 20138 19279
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 1.91 1.98 96.7 0.82 2.2 11.4 1825
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 1.91 34.76 17168 17168 1953 98.64 0.23742 0.23742 0.23253 0.2305 0.28056 0.277 RANDOM 31.333
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] 0.77 0.77 -1.54
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.093 r_dihedral_angle_4_deg 20.883 r_dihedral_angle_3_deg 19.238 r_dihedral_angle_1_deg 5.407 r_scangle_it 3.332 r_scbond_it 2.219 r_angle_refined_deg 1.487 r_mcangle_it 1.484 r_mcbond_it 0.957 r_nbd_refined 0.239
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.093 r_dihedral_angle_4_deg 20.883 r_dihedral_angle_3_deg 19.238 r_dihedral_angle_1_deg 5.407 r_scangle_it 3.332 r_scbond_it 2.219 r_angle_refined_deg 1.487 r_mcangle_it 1.484 r_mcbond_it 0.957 r_nbd_refined 0.239 r_symmetry_vdw_refined 0.208 r_symmetry_hbond_refined 0.207 r_xyhbond_nbd_refined 0.176 r_chiral_restr 0.127 r_bond_refined_d 0.014 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_refined 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 1826 Nucleic Acid Atoms Solvent Atoms 132 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement SBC-Collect data collection HKL-2000 data reduction HKL-2000 data scaling HKL-3000 phasing MLPHARE phasing RESOLVE phasing SHELXE model building SHELXD phasing