☰ Navigation Tabs
2.95 Angstrom Crystal Structure of the Dimeric Form of Penicillin Binding Protein 2 Prime from Enterococcus faecium
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 295 Protein: 12.4 mg/ml, 0.01M Tris-HCL (pH 8.3),
Screen: Classics II (A3), 0.1M Bis-Tris (pH 5.5), 2M Ammonium sulfate, Cryo: 25% Sucrose, 2M Ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 5.82 78.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 193.162 α = 90 b = 193.162 β = 90 c = 156.478 γ = 120
Symmetry Space Group P 63 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 MARMOSAIC 225 mm CCD 2015-03-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 0.97872 APS 21-ID-F
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 2.95 30 99.8 0.13 0.13 23.7 13.2 36548 -3 68.2
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 2.95 3 100 0.69 4 13.5
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 SAD THROUGHOUT 2.95 29.91 34772 1762 99.45 0.15437 0.1527 0.1632 0.18678 0.193 RANDOM 62.27
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] -0.11 -0.06 -0.11 0.36
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.647 r_dihedral_angle_4_deg 10.942 r_dihedral_angle_3_deg 9.395 r_long_range_B_refined 7.915 r_long_range_B_other 7.915 r_scangle_other 5.952 r_scbond_it 4.215 r_scbond_other 4.194 r_mcangle_it 3.758 r_mcangle_other 3.757
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.647 r_dihedral_angle_4_deg 10.942 r_dihedral_angle_3_deg 9.395 r_long_range_B_refined 7.915 r_long_range_B_other 7.915 r_scangle_other 5.952 r_scbond_it 4.215 r_scbond_other 4.194 r_mcangle_it 3.758 r_mcangle_other 3.757 r_mcbond_it 2.327 r_mcbond_other 2.326 r_dihedral_angle_1_deg 2.052 r_angle_refined_deg 1.515 r_angle_other_deg 0.746 r_chiral_restr 0.088 r_gen_planes_refined 0.022 r_gen_planes_other 0.019 r_bond_refined_d 0.009 r_bond_other_d 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4898 Nucleic Acid Atoms Solvent Atoms 243 Heterogen Atoms 78
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling PHENIX phasing BLU-MAX data collection