☰ Navigation Tabs
Crystal structure of membrane-bound lytic murein transglycosylase from Agrobacterium tumefaciens
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7 294 1.5 M Ammonium sulfate, 100 mM Sodium potassium tartrate, 175 mM Tri-sodium citrate, pH 7.0, VAPOR DIFFUSION, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.97 58.54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.665 α = 90 b = 88.665 β = 90 c = 221.434 γ = 120
Symmetry Space Group P 64 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 2007-04-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 31-ID 0.97958 APS 31-ID
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 1.9 76.786 100 0.079 0.079 27.5 13.5 41508 41508 21.6
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 1.9 2 100 0.38 0.38 6.5 12.5 5944
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 (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.9 20 41459 41459 2084 99.98 0.187 0.185 0.219 0.2097 RANDOM 24.981
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] 0.78 0.39 0.78 -1.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.017 r_dihedral_angle_4_deg 16.946 r_dihedral_angle_3_deg 12.501 r_dihedral_angle_1_deg 5.677 r_scangle_it 3.891 r_scbond_it 2.388 r_mcangle_it 1.502 r_angle_refined_deg 1.302 r_mcbond_it 0.937 r_nbtor_refined 0.313
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.017 r_dihedral_angle_4_deg 16.946 r_dihedral_angle_3_deg 12.501 r_dihedral_angle_1_deg 5.677 r_scangle_it 3.891 r_scbond_it 2.388 r_mcangle_it 1.502 r_angle_refined_deg 1.302 r_mcbond_it 0.937 r_nbtor_refined 0.313 r_symmetry_hbond_refined 0.212 r_nbd_refined 0.187 r_symmetry_vdw_refined 0.153 r_xyhbond_nbd_refined 0.14 r_chiral_restr 0.101 r_bond_refined_d 0.014 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2790 Nucleic Acid Atoms Solvent Atoms 376 Heterogen Atoms 5
Software Software Software Name Purpose SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction MAR345 data collection DENZO data reduction CCP4 data scaling SHELXCD phasing SHELXD phasing SHELXE model building