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Crystal structure of the S61A mutant of AmpC BER
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1F1G
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 295 25% PEG 3350, 0.1 M Citric Acid, NaOH pH 3.5
Crystal Properties Matthews coefficient Solvent content 3.49 64.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 207.208 α = 90 b = 207.208 β = 90 c = 45.635 γ = 120
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 315r 2015-12-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 5C (4A) 0.97950 PAL/PLS 5C (4A)
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.75 50 96.5 29.8 5.3 109761
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 1.75 1.78
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT 1F1G 1.75 50 104247 5514 96.51 0.17799 0.17679 0.1861 0.20015 0.2045 RANDOM 27.604
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] 0.45 0.23 0.45 -1.46
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.813 r_dihedral_angle_4_deg 18.641 r_dihedral_angle_3_deg 14.685 r_long_range_B_other 7.344 r_long_range_B_refined 7.331 r_dihedral_angle_1_deg 6.839 r_scangle_other 6.195 r_scbond_it 4.137 r_scbond_other 4.116 r_mcangle_it 3.418
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.813 r_dihedral_angle_4_deg 18.641 r_dihedral_angle_3_deg 14.685 r_long_range_B_other 7.344 r_long_range_B_refined 7.331 r_dihedral_angle_1_deg 6.839 r_scangle_other 6.195 r_scbond_it 4.137 r_scbond_other 4.116 r_mcangle_it 3.418 r_mcangle_other 3.417 r_mcbond_other 2.571 r_mcbond_it 2.57 r_angle_refined_deg 2.118 r_angle_other_deg 0.984 r_chiral_restr 0.145 r_bond_refined_d 0.023 r_gen_planes_refined 0.012 r_bond_other_d 0.001 r_gen_planes_other 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 5469 Nucleic Acid Atoms Solvent Atoms 269 Heterogen Atoms 52
Software Software Software Name Purpose REFMAC refinement HKL-2000 data processing HKL-2000 data scaling