☰ Navigation Tabs
Crystal structure of oxidized DapF from Corynebacterium glutamicum
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 293 Ammonium sulfate, Bis-Tris
Crystal Properties Matthews coefficient Solvent content 3.97 68.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.738 α = 90 b = 119.079 β = 90 c = 155.585 γ = 90
Symmetry Space Group I 2 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 ADSC QUANTUM 270 2014-10-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 7A (6B, 6C1) 0.97934 PAL/PLS 7A (6B, 6C1)
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 94.56 98.71 5.8 8.1 59911
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 2.03 100 5.1 8.1
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 2 94.56 59911 3154 98.71 0.1902 0.1887 0.2017 0.2191 0.2287 RANDOM 36.193
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] -1.97 -2.02 3.99
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.678 r_dihedral_angle_4_deg 16.581 r_dihedral_angle_3_deg 13.478 r_dihedral_angle_1_deg 7.484 r_mcangle_it 4.796 r_mcbond_it 3.711 r_mcbond_other 3.704 r_angle_refined_deg 2.137 r_angle_other_deg 1.073 r_chiral_restr 0.136
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.678 r_dihedral_angle_4_deg 16.581 r_dihedral_angle_3_deg 13.478 r_dihedral_angle_1_deg 7.484 r_mcangle_it 4.796 r_mcbond_it 3.711 r_mcbond_other 3.704 r_angle_refined_deg 2.137 r_angle_other_deg 1.073 r_chiral_restr 0.136 r_bond_refined_d 0.023 r_gen_planes_refined 0.01 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4126 Nucleic Acid Atoms Solvent Atoms 426 Heterogen Atoms 11
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection PDB_EXTRACT data extraction HKL-2000 data reduction HKL-2000 data scaling PHENIX phasing HKL data reduction