☰ Navigation Tabs
Crystal structure of D-alanine-D-alanine ligase from Acinetobacter baumannii
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 6.9 287 0.2M NaSCN, 20% PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.9 57.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 221.618 α = 90 b = 74.766 β = 103.27 c = 143.117 γ = 90
Symmetry Space Group C 1 2 1
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 2014-12-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 5C (4A) 0.97960 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 2.19 50 99.6 22.1 5.2 115881
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 2.19 2.24 99 2.1 4.1
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.19 36.05 109440 5778 98.43 0.22365 0.22062 0.28065 0.257 RANDOM 64.572
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] 0.01 0.01 -0.02 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.246 r_dihedral_angle_4_deg 21.98 r_dihedral_angle_3_deg 20.68 r_long_range_B_refined 10.15 r_long_range_B_other 10.145 r_scangle_other 7.499 r_dihedral_angle_1_deg 7.09 r_mcangle_it 6.907 r_mcangle_other 6.907 r_scbond_it 4.847
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.246 r_dihedral_angle_4_deg 21.98 r_dihedral_angle_3_deg 20.68 r_long_range_B_refined 10.15 r_long_range_B_other 10.145 r_scangle_other 7.499 r_dihedral_angle_1_deg 7.09 r_mcangle_it 6.907 r_mcangle_other 6.907 r_scbond_it 4.847 r_scbond_other 4.846 r_mcbond_it 4.618 r_mcbond_other 4.617 r_angle_refined_deg 1.755 r_angle_other_deg 1.111 r_chiral_restr 0.121 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_bond_other_d 0.003 r_gen_planes_other 0.002 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 12711 Nucleic Acid Atoms Solvent Atoms 199 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction HKL-2000 data scaling HKL-2000 phasing