☰ Navigation Tabs
Crystal structure of Staphylococcus peptidoglycan hydrolase AmiE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 277 22% butanediol, 0.1M imidazole, 0.15M zinc acetate, pH 7, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.77 67.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 99.453 α = 90 b = 99.453 β = 90 c = 148.783 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 MARMOSAIC 225 mm CCD 2007-09-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 0.99990 SLS X06SA
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 1.7 40 99.4 0.09 19.6 10 82089 24.4
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.7 1.76 0.33 0.33 2.4 6.2 8081
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) 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 SIR THROUGHOUT 1.7 30.77 77827 4164 99.42 0.14416 0.143 0.1429 0.16518 0.1644 RANDOM 28.645
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] -0.03 -0.03 0.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.377 r_dihedral_angle_3_deg 11.686 r_dihedral_angle_4_deg 9.365 r_dihedral_angle_1_deg 5.736 r_scangle_it 3.481 r_scbond_it 2.507 r_mcangle_it 1.437 r_angle_refined_deg 1.071 r_mcbond_it 0.881 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.377 r_dihedral_angle_3_deg 11.686 r_dihedral_angle_4_deg 9.365 r_dihedral_angle_1_deg 5.736 r_scangle_it 3.481 r_scbond_it 2.507 r_mcangle_it 1.437 r_angle_refined_deg 1.071 r_mcbond_it 0.881 r_nbtor_refined 0.306 r_symmetry_vdw_refined 0.21 r_nbd_refined 0.195 r_xyhbond_nbd_refined 0.125 r_symmetry_hbond_refined 0.115 r_symmetry_metal_ion_refined 0.081 r_chiral_restr 0.077 r_metal_ion_refined 0.06 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 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_other r_symmetry_vdw_other r_symmetry_hbond_other 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 3409 Nucleic Acid Atoms Solvent Atoms 526 Heterogen Atoms 43
Software Software Software Name Purpose HKL-2000 data collection MLPHARE phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling