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Crystal structure of putative peptidase from Chlamydophila abortus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 298 0.1M Hepes pH 7.5, 1.4 M Sodium citrate dihydrate, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 3.2 61.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 147.775 α = 90 b = 147.775 β = 90 c = 143.658 γ = 120
Symmetry Space Group P 65 2 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 MAR CCD 165 mm 2008-02-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X4C 0.9793 NSLS X4C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.6 50 100 0.129 0.086 4.9 16.2 54008 54008
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.6 2.69 100 1.5 16 5418
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 2.6 36.94 28978 28978 1474 99.86 0.195 0.195 0.192 0.1912 0.246 0.2412 RANDOM 53.967
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] -0.08 -0.04 -0.08 0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.598 r_dihedral_angle_4_deg 18.662 r_dihedral_angle_3_deg 18.279 r_scangle_it 6.459 r_mcangle_it 5.868 r_dihedral_angle_1_deg 5.532 r_scbond_it 4.62 r_mcbond_it 3.886 r_angle_refined_deg 1.434 r_nbtor_refined 0.334
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.598 r_dihedral_angle_4_deg 18.662 r_dihedral_angle_3_deg 18.279 r_scangle_it 6.459 r_mcangle_it 5.868 r_dihedral_angle_1_deg 5.532 r_scbond_it 4.62 r_mcbond_it 3.886 r_angle_refined_deg 1.434 r_nbtor_refined 0.334 r_nbd_refined 0.25 r_symmetry_vdw_refined 0.195 r_xyhbond_nbd_refined 0.178 r_symmetry_hbond_refined 0.161 r_chiral_restr 0.096 r_metal_ion_refined 0.093 r_bond_refined_d 0.012 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4808 Nucleic Acid Atoms Solvent Atoms 19 Heterogen Atoms 6
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction MAR345dtb data collection HKL-2000 data reduction SHELXD phasing SHELXE model building